Nova Reader - Subject https://www.novareader.co Default RSS Feed en-us Newgen KnowledgeWorks <![CDATA[Analysis of conflict of interest policies among organizations producing clinical practice guidelines]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249267

Background

Conflicts of interest (COI) jeopardize the validity of Clinical Practice Guidelines (CPGs). When the Institute of Medicine promulgated COI policies in 2011, few organizations met these requirements, but it is unknown if organizations have improved their policies since that time. We sought to evaluate current adherence to IOM standards of COI policies.

Methods and findings

We conducted a retrospective document review of COI policies and CPGs from organizations that published five or more CPGs between January 1, 2018 and December 31, 2019. Organizations were identified via CPG databases. COI policies were obtained from an internet search. We collected data on i) the number of organizations that have COI policies specific to CPG development, ii) the number of policies meeting each IOM standard and iii) the number of IOM standards met by each policy. COI disclosures from five CPGs of each organization were assessed for adherence to IOM standards. Among the 46 organizations that published 5 or more CPGs, 36 (78%) had a COI policy. Standard 2.2b (requiring divestment of financial COI) was met least frequently, by 2 of 36 (6%) organizations. Standard 2.1 (requiring disclosure of COI) was met most frequently, by 33 of 36 (92%) organizations. A total of 31 of 36 (86%) organizations met 4 or fewer of the 7 IOM standards. Among the 16 organizations limiting COI to a minority of the CPG panel (standard 2.4c) and the 15 organizations prohibiting COI among chairs or co-chairs (standard 2.4d), 12 (75%) and 10 (67%) organizations violated the respective standard in at least one CPG. The main limitations of our study are the exclusion of organizations producing fewer CPGs and ability to assess only publicly available policies.

Conclusion

Among organizations producing CPGs, COI policies frequently do not meet IOM standards, and organizations often violate their own policies. These shortcomings may undermine the public trust in and thus the utility of CPGs. CPG-producing organizations should improve their COI policies and their strategies to manage COI to increase the trustworthiness of CPGs.

]]> <![CDATA[A survey of current trends and suggested future directions in coral transplantation for reef restoration]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249966 Coral transplantation has been used in reef restoration for several decades, but information on the type of projects, their scope, scale, and success is mostly limited to published scientific studies and technical reports. Many practitioners do not have the capacity to share their progress in peer-reviewed literature, yet likely have a wealth of information to share on how to improve the efficiency of transplantation efforts. In order to incorporate non-published data on coral transplantation projects and gain an overview of the general features of these projects, we conducted an initial systematic online survey of projects run by various practitioners. Surveyed projects (n = 50) covered most of the tropical belt and ranged in size from a few hundred transplanted corals to >5000 transplants. The most frequent source of coral fragments were corals already broken from some previous impact (“corals of opportunity”; 58% of projects), followed by fragments stored in different types of aquaculture systems (42% of projects). The use of sexual reproduction was very limited. Fast-growing, branching corals were used in 96% of projects, being by far the most common transplanted growth form. About half of the projects mentioned undertaking maintenance of the transplantation plots. The majority of projects undertook subsequent monitoring (80%), yet the available data indicates that duration of monitoring efforts was not adequate to evaluate long-term success. The findings underline that while some general principles for successful coral restoration projects are reasonably well established, others need to be mainstreamed better in order to improve the effectiveness of coral transplantation for reef restoration. This relates in particular to sustainable funding, adequate site assessment, and long-term monitoring using established protocols. Additional information is needed to better understand and address potential challenges with regards to the sourcing of transplants and use of slow-growing species. A better integration of practitioners is necessary to improve the understanding of coral transplantation effectiveness. The results underline a need to develop and use monitoring protocols that allow gauging and comparing the effectiveness of coral transplantation among various projects, as well as for accessible platform(s) to allow the exchange of experiences made in different projects. Regular surveys of restoration projects are recommended to collate and share information among practitioners. We provide a number of recommendations for items to include in future surveys.

]]> <![CDATA[Assessment of preventive behavior and associated factors towards COVID-19 in Qellam Wallaga Zone, Oromia, Ethiopia: A community-based cross-sectional study]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0251062

Background

The world is being challenged by the COVID-19 outbreak that resulted in a universal concern and economic hardship. It is a leading public health emergency across the globe in general and developing countries in particular. Strengthening good preventive behavior is the best way to tackle such pandemics.

Objective

The study assessed preventive behavior and associated factors towards COVID-19 among residents of Qellam Wallaga Zone, Oromia Region, Ethiopia, 2020.

Methods

A community-based cross-sectional study was conducted with a multistage sampling technique. Data were collected by interview and analyzed using SPSS version 23.0. Binomial logistic regression was used to test the association between the variables. An Adjusted Prevalence with 95% CI was used to express the associations and interpret the findings.

Results

Among 634 participants, 417(65.8%) were from urban residences, and 347 (54.7%) belongs to a female. Age ranges 18 years through 87 years. Only 68(10.7%) participants showed good preventive behavior for COVID-19. The majority of them (84.7%) perceived that the disease is very dangerous and 450(71.0%) of them believe that they are at high risk. More than 17% of the respondents have sufficient knowledge. Respondents with sufficient knowledge about COVID-19 were about 2 times more likely to exercise good preventive behavior compare to those with insufficient knowledge, [(APR: 2.1; 95% CI: [1.2, 3.9)]. The urban residents was 3.3 more than that of rural residents to practice good preventive behavior, [(APR: 3.3; 95% CI: [1.6, 6.4)]. Respondents who use social media as a source of information were more than 2 times more likely to have good preventive behavior compared to those who did not, [(APR: 2.3; 95% CI: [1.3, 3.4)].

Conclusion

Adoptions of COVID-19 preventive behavior in the study population is very low. Due emphasis should be given to rural residents. Risk communication activities should be strengthened through effective community engagement to slow down and stop the transmssion of the disease in the community.

]]> <![CDATA[<i>LOXL1</i> gene polymorphisms are associated with exfoliation syndrome/exfoliation glaucoma risk: An updated meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250772

Background

Single nucleotide polymorphisms (SNPs) in the gene encoding LOXL1 are risk factors for exfoliation syndrome and exfoliation glaucoma. This meta-analysis comprehensively investigated the association between LOXL1 gene polymorphisms (rs1048661, rs3825942, and rs2165241) and the risk of exfoliation syndrome/exfoliation glaucoma (XFS)/(XFG).

Methods

All eligible case-control studies, published before August 17, 2020, were searched on Medline (Ovid), PubMed, CNKI, EMBASE, and Wanfang databases.

Results

In total, 5022 cases and 8962 controls were included in this meta-analysis. Significant associations between LOXL1 gene polymorphisms and XFS/XFG risk was observed in the disease types-based subgroups. In addition, in the subgroup analysis of ethnicity, positive associations between LOXL1 gene polymorphisms (rs1048661, rs3825942, and rs2165241) and XFS/XFG risk were found in Caucasians. Furthermore, rs1048661 and rs3825942 polymorphisms were related to XFS/ XFG risk in Asians; however, no significant association was observed between the LOXL1 gene rs2165241 polymorphism and XFS/XFG risk in Asians. In addition, rs1048661 and rs3825942 correlated with XFS/XFG susceptibility in Africans.

Conclusions

Our results implicate LOXL1 gene polymorphisms as XFS/XFG risk factors, especially in Caucasians.

]]> <![CDATA[From intent to implementation: Factors affecting public involvement in life science research]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250023 Public involvement is key to closing the gap between research production and research use, and the only way to achieving ultimate transparency in science. The majority of life science research is not public-facing, but is funded by the public and impacts communities. We undertook an exploratory survey of researchers within the life sciences to better understand their views and perceived challenges to involving the public in their research. As survey response rate could not be determined, interpretation of the results must be cautious. We had a valid response cohort of n = 110 researchers, of whom 90% were primarily laboratory based. Using a mixed methods approach, we demonstrate that a top-down approach is key to motivate progression of life scientists from feeling positive towards public involvement to actually engaging in it. Researchers who viewed public involvement as beneficial to their research were more likely to have direct experience of doing it. We demonstrate that the systemic flaws in the way life sciences research enterprise is organised, including the promotion system, hyper-competition, and time pressures are major barriers to involving the public in the scientific process. Scientists are also apprehensive of being involuntarily involved in the current politicized climate; misinformation and publicity hype surrounding science nowadays makes them hesitant to share their early and in-progress research. The time required to deliberate study design and relevance, plan and build relationships for sustained involvement, provide and undertake training, and improve communication in the current research environment is often considered nonpragmatic, particularly for early career researchers. In conclusion, a top-down approach involving institutional incentives and infrastructure appears most effective at transitioning researchers from feeling positive towards public involvement to actually implementing it.

]]> <![CDATA[The robust estimation of examinee ability based on the four-parameter logistic model when guessing and carelessness responses exist]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250268 The three-parameter Logistic model (3PLM) and the four-parameter Logistic model (4PLM) have been proposed to reduce biases in cases of response disturbances, including random guessing and carelessness. However, they could also influence the examinees who do not guess or make careless errors. This paper proposes a new approach to solve this problem, which is a robust estimation based on the 4PLM (4PLM-Robust), involving a critical-probability guessing parameter and a carelessness parameter. This approach is compared with the 2PLM-MLE(two-parameter Logistic model and a maximum likelihood estimator), the 3PLM-MLE, the 4PLM-MLE, the Biweight estimation and the Huber estimation in terms of bias using an example and three simulation studies. The results show that the 4PLM-Robust is an effective method for robust estimation, and its calculation is simpler than the Biweight estimation and the Huber estimation.

]]> <![CDATA[Investigating mediated public engagement with science on the “science” subreddit: From the participants’ perspective]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249181 While public engagement with science activities traditionally inhabits physical environments (i.e., museum exhibits), as the Internet becomes more ubiquitous, new types of public engagement with science mediated through information technologies have emerged. Instead of having scientific findings filtered through traditional mediators, scientists have begun to take advantage of social media in order to communicate directly with the general public. This paper focuses on technology mediated public engagement with science in an online environment, specifically the sub-Reddit called “r/science”, on a popular platform, Reddit, in which we investigated the factors contributing to user engagement and perceived effects of science communication from the users’ perspectives. The survey instrument including user engagement scales, perceived effects of science communication, and demographics were distributed among 2000 participants in the r/science Ask Me Anything (AMA) series. We analyzed 146 survey responses using descriptive statistics and ordinal logistic regression. The findings indicated that the participants were generally engaged compared to ones in other studies that used the same user engagement scales and perceived positive effects on science communication, except when it came to building trust. Furthermore, we found that time spent on this particular platform appeared to be the most important factor when it came to positive perceived effects of r/science AMAs. This type of mediated public engagement has been insufficiently investigated, most particularly in terms of the examination of participants’ perspectives. This void is addressed in this study. The findings from the study will also be informative to similar platforms that support mediated public engagement with science.

]]> <![CDATA[Cross-platform programming model for many-core lattice Boltzmann simulations]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250306 We present a novel, hardware-agnostic implementation strategy for lattice Boltzmann (LB) simulations, which yields massive performance on homogeneous and heterogeneous many-core platforms. Based solely on C++17 Parallel Algorithms, our approach does not rely on any language extensions, external libraries, vendor-specific code annotations, or pre-compilation steps. Thanks in particular to a recently proposed GPU back-end to C++17 Parallel Algorithms, it is shown that a single code can compile and reach state-of-the-art performance on both many-core CPU and GPU environments for the solution of a given non trivial fluid dynamics problem. The proposed strategy is tested with six different, commonly used implementation schemes to test the performance impact of memory access patterns on different platforms. Nine different LB collision models are included in the tests and exhibit good performance, demonstrating the versatility of our parallel approach. This work shows that it is less than ever necessary to draw a distinction between research and production software, as a concise and generic LB implementation yields performances comparable to those achievable in a hardware specific programming language. The results also highlight the gains of performance achieved by modern many-core CPUs and their apparent capability to narrow the gap with the traditionally massively faster GPU platforms. All code is made available to the community in form of the open-source project stlbm, which serves both as a stand-alone simulation software and as a collection of reusable patterns for the acceleration of pre-existing LB codes.

]]> <![CDATA[Leader-member exchange fosters nurses’ job and life satisfaction: The mediating effect of job crafting]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250789 This study aims to evaluate the effects of leader-member exchange (LMX) on job and life satisfaction among nurses in China and to examine the mediating effect of individual and collaborative job crafting between LMX and job and life satisfaction. The study recruited 263 nurses who worked in hospitals in Zhejiang province, China. A set of self-administered questionnaires were used to measure the variables of LMX, job crafting, job and life satisfaction. The data was analyzed using the partial least square structural equation modelling (PLS-SEM). The results reveal that LMX has a significant positive influence on job crafting and job satisfaction. Collaborative job crafting has a significant positive influence on the job satisfaction of nurses, whereas individual job crafting does not. Moreover, LMX will affect job satisfaction and life satisfaction through a partial mediating effect of both individual and collaborative job crafting. Finally, the article discusses the academically and practical implications, and also provide some suggestions and directions for the future research.

]]> <![CDATA[Understanding the nature and dimensions of litigation crowdfunding: A visual analytics approach]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250522 The escalating cost of civil litigation is leaving many defendants and plaintiffs unable to meet legal expenses such as attorney fees, court charges and others. This significantly impacts their ability to sue or defend themselves effectively. Related to this phenomenon is the ethics discussion around access to justice and crowdfunding. This article explores the dimensions that explain the phenomenon of litigation crowdfunding. Using data from CrowdJustice, a popular Internet fundraising platform used to assist in turning legal cases into publicly funded social cases, we study litigation crowdfunding through the lenses of the number of pledges, goal achievement, target amount, length of description, country, case category, and others. Overall, we see a higher number of cases seeking funding in the categories of human rights, environment, and judicial review. Meanwhile, the platform offers access to funding for other less prominent categories, such as voting rights, personal injury, intellectual property, and data & privacy. At the same time, donors are willing to donate more to cases related to health, politics, and public services. Also noteworthy is that while donors are willing to donate to education, animal welfare, data & privacy, and inquest-related cases, they are not willing to donate large sums to these causes. In terms of lawyer/law firm status, donors are more willing to donate to cases assisted by experienced lawyers. Furthermore, we also note that the higher the number of successful cases an attorney presents, the greater the amount raised. We analyzed valence, arousal, and dominance in case description and found they have a positive relationship with funds raised. Also, when a case description is updated on a crowdsourcing site, it ends up being more successful in funding—at least in the categories of health, immigration, and judicial review. This is not the case, however, for categories such as public service, human rights, and environment. Our research addresses whether litigation crowdfunding, in particular, levels the playing field in terms of opening up financing opportunities for those individuals who cannot afford the costs of litigation. While it may support social justice, ethical concerns with regards to the kinds of campaigns must also be addressed. Most of the ethical concerns center around issues relating to both the fundraisers and donors. Our findings have ethical and social justice implications for crowdfunding platform design.

]]> <![CDATA[Incorporating equity, diversity, and inclusiveness into the Hong Kong Principles]]> https://www.novareader.co/book/isbn/10.1371/journal.pbio.3001140 In this response to Labib and Evans, authors of the Hong Kong Principles look forward to collaborating with those from the broad research integrity community to ensure that issues of equity, diversity and inclusion will become part of the ecosystem of research integrity.

]]> <![CDATA[Gender, diversity, and the responsible assessment of researchers]]> https://www.novareader.co/book/isbn/10.1371/journal.pbio.3001036 In response to the Hong Kong Principles for assessing researchers, this Formal Comment argues that it is time to take gender and diversity considerations seriously in the pursuit of fostering research integrity; this requires acknowledging and reshaping the influence of research assessment criteria on researcher representation.

]]> <![CDATA[Everyday ethics of suicide care: Survey of mental health care providers’ perspectives and support needs]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249048 Suicide occurs in people of all ages and backgrounds, which negatively affects families, communities, and the health care providers (HCPs) who care for them. The objective of this study was to better understand HCPs’ perspectives of everyday ethical issues related to caring for suicidal patients, and their perceived needs for training and/or support to address these issues. We conducted a mixed methods survey among HCPs working in mental health in Québec, Canada. Survey questions addressed their perspectives and experiences of everyday ethical challenges they encounter in their practice with people who are suicidal, and their perceived needs for training and/or support therein. 477 HCPs completed the survey. Most participants mentioned encountering ethical issues when caring for people who are suicidal. The challenges HCPs encounter in their practice with people who are suicidal are numerous, including issues related to maintaining privacy, confidentiality, freedom and the therapeutic relationship. The lack of time, resources and professional support to address these issues was emphasized. Most HCPs reported that the training or education they have received does not allow them to address everyday ethical issues related to suicide care. In sum, there is a clear reported need for better training and support for HCPs who are offering care to people who are suicidal in relation to everyday ethical issues they encounter. Implications for practice include providing greater access to training, including access to specialists in ethics to address specific issues. This additional support could alleviate morally distressing situations for HCPs.

]]> <![CDATA[Over half of clinical practice guidelines use non-systematic methods to inform recommendations: A methods study]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250356

Introduction

Assessing the process used to synthesize the evidence in clinical practice guidelines enables users to determine the trustworthiness of the recommendations. Clinicians are increasingly dependent on guidelines to keep up with vast quantities of medical literature, and guidelines are followed to avoid malpractice suits. We aimed to assess whether systematic methods were used when synthesizing the evidence for guidelines; and to determine the type of review cited in support of recommendations.

Methods

Guidelines published in 2017 and 2018 were retrieved from the TRIP and Epistemonikos databases. We randomly sorted and sequentially screened clinical guidelines on all topics to select the first 50 that met our inclusion criteria. Our primary outcomes were the number of guidelines using either a systematic or non-systematic process to gather, assess, and synthesise evidence; and the numbers of recommendations within guidelines based on different types of evidence synthesis (systematic or non-systematic reviews). If a review was cited, we looked for evidence that it was critically appraised, and recorded which quality assessment tool was used. Finally, we examined the relation between the use of the GRADE approach, systematic review process, and type of funder.

Results

Of the 50 guidelines, 17 (34%) systematically synthesised the evidence to inform recommendations. These 17 guidelines clearly reported their objectives and eligibility criteria, conducted comprehensive search strategies, and assessed the quality of the studies. Of the 29/50 guidelines that included reviews, 6 (21%) assessed the risk of bias of the review. The quality of primary studies was reported in 30/50 (60%) guidelines.

Conclusions

High quality, systematic review products provide the best available evidence to inform guideline recommendations. Using non-systematic methods compromises the validity and reliability of the evidence used to inform guideline recommendations, leading to potentially misleading and untrustworthy results.

]]> <![CDATA[eNose-TB: A trial study protocol of electronic nose for tuberculosis screening in Indonesia]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249689

Background

Even though conceptually, Tuberculosis (TB) is almost always curable, it is currently the world’s leading infectious killer. Patients with pulmonary TB are the source of transmission. Approximately 23% of the world’s population is believed to be latently infected with TB bacteria, and 5–15% of them will progress at any point in time to develop the disease. There was a global diagnostic gap of 2.9 million between notifications of new cases and the estimated number of incident cases, and Indonesia carries the third-highest of this gap. Therefore, screening TB among the community is of great importance to prevent further transmission and infection. The electronic nose for screening TB (eNose-TB) project is initiated in Yogyakarta, Indonesia, to screen TB by breath test with an electronic-nose that is easy-to-use, point-of-care, does not expose patients to radiation, and can be produced at low cost.

Methods/Design

The objectives of the two-phase planned project are to: 1) investigate the potential of an eNose-TB as a screening tool in Indonesia, in comparison with screening with clinical symptoms and chest radiology, which are currently used as a standard, and 2) analyze the time and cost of a screening algorithm with eNose-TB to obtain additional case detection. A cross-sectional study will be conducted in the first phase to validate the eNose-TB. The validation phase will involve 395 presumptive TB patients in the Surakarta General Hospital, Central Java. In the second phase, a cross-sectional research will be conducted, involving 1,383 adults and children in the municipality of Yogyakarta and Kulon Progo district of Yogyakarta Province.

Discussion

The findings will provide data concerning the sensitivity and specificity of the eNose-TB as a screening tool for tuberculosis, and the time and cost analysis of a screening algorithm with the eNose.

Trial registration

NCT04567498; https://clinicaltrials.gov/.

]]> <![CDATA[The belief that politics drive scientific research & its impact on COVID-19 risk assessment]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249937 We use survey data collected from 12,037 US respondents to examine the extent to which the American public believes that political motives drive the manner in which scientific research is conducted and assess the impact that such beliefs have on COVID-19 risk assessments. We find that this is a commonly held belief and that it is negatively associated with risk assessments. Public distrust in scientists could complicate efforts to combat COVID-19, given that risk assessments are strongly associated with one’s propensity to adopt preventative health measures.

]]> <![CDATA[Responsible product design to mitigate excessive gambling: A scoping review and z-curve analysis of replicability]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249926

Objectives

Systematic mapping of evaluations of tools and interventions that are intended to mitigate risks for gambling harm.

Design

Scoping Review and z-curve analysis (which estimates the average replicability of a body of literature).

Search strategy

We searched 7 databases. We also examined reference lists of included studies, as well as papers that cited included studies. Included studies described a quantitative empirical assessment of a game-based (i.e., intrinsic to a specific gambling product) structural feature, user-directed tool, or regulatory initiative to promote responsible gambling. At least two research assistants independently performed screening and extracted study characteristics (e.g., study design and sample size). One author extracted statistics for the z-curve analysis.

Results

86 studies met inclusion criteria. No tools or interventions had unambiguous evidence of efficacy, but some show promise, such as within-session breaks in play. Pre-registration of research hypotheses, methods, and analytic plans was absent until 2019, reflecting a recent embracement of open science practices. Published studies also inconsistently reported effect sizes and power analyses. The results of z-curve provide some evidence of publication bias, and suggest that the replicability of the responsible product design literature is uncertain but could be low.

Conclusion

Greater transparency and precision are paramount to improving the evidence base for responsible product design to mitigate gambling-related harm.

]]> <![CDATA[Citizen science with colour blindness: A case study on the Forel-Ule scale]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249755 Many citizen science projects depend on colour vision. Examples include classification of soil or water types and biological monitoring. However, up to 1 in 11 participants are colour blind. We simulate the impact of various forms of colour blindness on measurements with the Forel-Ule scale, which is used to measure water colour by eye with a 21-colour scale. Colour blindness decreases the median discriminability between Forel-Ule colours by up to 33% and makes several colour pairs essentially indistinguishable. This reduces the precision and accuracy of citizen science data and the motivation of participants. These issues can be addressed by including uncertainty estimates in data entry forms and discussing colour blindness in training materials. These conclusions and recommendations apply to colour-based citizen science in general, including other classification and monitoring activities. Being inclusive of the colour blind increases both the social and scientific impact of citizen science.

]]> <![CDATA[Estimating an individual-level deprivation index for HIV/HCV coinfected persons in Canada]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249836

Background

HIV-HCV coinfected individuals are often more deprived than the general population. However, deprivation is difficult to measure, often relying on aggregate data which does not capture individual heterogeneity. We developed an individual-level deprivation index for HIV-HCV co-infected persons that encapsulated social, material, and lifestyle factors.

Methods

We estimated an individual-level deprivation index with data from the Canadian Coinfection Cohort, a national prospective cohort study. We used a predetermined process to select 9 out of 19 dichotomous variables at baseline visit to include in the deprivation model: income >$1500/month; education >high school; employment; identifying as gay or bisexual; Indigenous status; injection drug use in last 6 months; injection drug use ever; past incarceration, and past psychiatric hospitalization. We fitted an item response theory model with: severity parameters (how likely an item was reported), discriminatory parameters, (how well a variable distinguished index levels), and an individual parameter (the index). We considered two models: a simple one with no provincial variation and a hierarchical model by province. The Widely Applicable Information Criterion (WAIC) was used to compare the fitted models. To showcase a potential utility of the proposed index, we evaluated with logistic regression the association of the index with non-attendance to a second clinic visit (as a proxy for disengagement) and using WAIC compared it to a model containing all the individual parameters that compose the index as covariates.

Results

We analyzed 1547 complete cases of 1842 enrolled participants. According to the WAIC the hierarchical model provided a better fit when compared to the model that does not consider the individual’s province. Values of the index were similarly distributed across the provinces. Overall, past incarceration, education, and unemployment had the highest discriminatory parameters. However, in each province different components of the index were associated with being deprived reflecting local epidemiology. For example, Saskatchewan had the highest severity parameter for Indigenous status while Quebec the lowest. For the secondary analysis, 457 (30%) failed to attend a second visit. A one-unit increase in the index was associated with 17% increased odds (95% credible interval, 2% to 34%) of not attending a second visit. The model with just the index performed better than the model with all the components as covariates in terms of WAIC.

Conclusion

We estimated an individual-level deprivation index in the Canadian Coinfection cohort. The index identified deprivation profiles across different provinces. This index and the methodology used may be useful in studying health and treatment outcomes that are influenced by social disparities in co-infected Canadians. The methodological approach described can be used in other studies with similar characteristics.

]]> <![CDATA[Regional development potentials of Industry 4.0: Open data indicators of the Industry 4.0+ model]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250247 This paper aims to identify the regional potential of Industry 4.0 (I4.0). Although the regional background of a company significantly determines how the concept of I4.0 can be introduced, the regional aspects of digital transformation are often neglected with regard to the analysis of I4.0 readiness. Based on the analysis of the I4.0 readiness models, the external regional success factors of the implementation of I4.0 solutions are determined. An I4.0+ (regional Industry 4.0) readiness model, a specific indicator system is developed to foster medium-term regional I4.0 readiness analysis and foresight planning. The indicator system is based on three types of data sources: (1) open governmental data; (2) alternative metrics like the number of I4.0-related publications and patent applications; and (3) the number of news stories related to economic and industrial development. The indicators are aggregated to the statistical regions (NUTS 2), and their relationships analyzed using the Sum of Ranking Differences (SRD) and Promethee II methods. The developed I4.0+ readiness index correlates with regional economic, innovation and competitiveness indexes, which indicates the importance of boosting regional I4.0 readiness.

]]> <![CDATA[Peer influence in adolescent drinking behavior: A meta-analysis of stochastic actor-based modeling studies]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0250169

Objectives

To measure the effects of peer influence and peer selection on drinking behavior in adolescence through a rigorous statistical approach designed to unravel these interrelated processes.

Methods

We conducted systematic searches of electronic databases, thesis collections and conference proceedings to identify studies that used longitudinal network design and stochastic actor-oriented modeling to analyze drinking behavior in adolescents. Parameter estimates collected from individual studies were analyzed using multilevel random-effects models.

Results

We identified 26 articles eligible for meta-analysis. Meta-analyses for different specifications of the peer influence effect were conducted separately. The peer influence effect was positive for every specification: for average similarity (avSim) mean log odds ratio was 1.27 with 95% confidence interval [0.04; 2.49]; for total similarity (totSim) 0.46 (95% CI = [0.44; 0.48]), and for average alter (avAlt) 0.70 (95% CI = [-0.01; 1.41]). The peer selection effect (simX) was also positive: 0.46 (95% CI = [0.28; 0.63]). Conversion log odds ratio values to Cohen’s d gives estimates from 0.25 to 0.70, which is considered as medium to large effect.

Conclusions

Advances in methodology for social network analysis have made it possible to accurately estimate peer influence effects free from peer selection effects. More research is necessary to clarify the roles of age, gender, and individual susceptibility on the changing behavior of adolescents under the influence of their peers. Understanding the effects of peer influence should inform practitioners and policy makers to design and deliver more effective prevention programs.

]]> <![CDATA[Compliance with Iron and Folic Acid Supplementation (IFAS) and associated factors among pregnant women in Sub-Saharan Africa: A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249789

Background

Anemia is one of the world’s leading cause of disability and the most serious global public health issues. This systematic review and meta-analysis was conducted very carefully in order to give up the pooled compliance of Iron and Folic-Acid Supplementation in Sub-Saharan Africa.

Methods

To conduct this brief systematic review and meta-analysis, a related literature search was done from different sources, PubMed Medline and Google Scholar Journals. Then IFA Supplementation related searching engine was used to make the work more meaningful and intensive. Moreover, we used modified Newcastle-Ottawa quality assessment scale for cross sectional studies to assess the quality of the study in terms of their inclusion. Then, the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guideline was followed to carry out the work in a carful manner. Finally, the pooled effect size was computed using the review manager and Compressive Meta-analysis software.

Results

Twenty-three studies, which encompassed 24272 pregnant women, were chosen for the analysis. From those an overall prevalence of compliance with Iron and Folic Acid Supplementation (IFAS) in pregnancy in SSA was 39.2%. However, the result from meta-analysis showed that women who were counseled on IFAS in their courses of pregnancy were 1.96 times more likely to adhere to IFAS compared to those who were not counseled [OR:1.96, 95% CI (1.76-,5.93)]. Moreover, it showed that women who had knowledge of IFAS were 2.71 times more likely to have compliance with IFAS as compared to those who had no knowledge of IFAS [OR:2.71, 95% CI (1.33,5.54)]. Also it revealed that those women who had knowledge of anemia were 5.42 times more likely to have compliance with IFAS as compared with those who had no knowledge of anemia [OR5.42, 95% CI (1.52, 19.43)]. Furthermore, women who had received fourth visit for ANC were 1.54 times more likely to have compliance with IFAS as compared to those who had not received for ANC [OR 1.54, 95% CI (0.66, 3.58.43)].

Conclusions

Our finding from this systematic review and meta-analysis shows the low case in prevalence of compliance to IFAS among pregnant women in SSA. Predictors for this includes: knowledge about anemia, knowledge about IFAS, counseling on IFAS and receiving fourth antenatal care visit were statistically correlated positively with compliance to IFAS. This demands careful appraisal of effect of prevention work for functioning policy, programs and plan nutrition intrusions for refining maternal dietary intake in gestation. Also dietary education intrusion requires to be planned to satisfy the needs of pregnant women. So we hope that the result of this study might be essential as a bridging stone for policy makers of Africa; exclusively for maternal and child health care. Finally, we recommended further studies to be conducted in the area of the study for more intensive and detailed suggestions.

]]> <![CDATA[Creating clear and informative image-based figures for scientific publications]]> https://www.novareader.co/book/isbn/10.1371/journal.pbio.3001161 Scientists routinely use images to display data. Readers often examine figures first; therefore, it is important that figures are accessible to a broad audience. Many resources discuss fraudulent image manipulation and technical specifications for image acquisition; however, data on the legibility and interpretability of images are scarce. We systematically examined these factors in non-blot images published in the top 15 journals in 3 fields; plant sciences, cell biology, and physiology (n = 580 papers). Common problems included missing scale bars, misplaced or poorly marked insets, images or labels that were not accessible to colorblind readers, and insufficient explanations of colors, labels, annotations, or the species and tissue or object depicted in the image. Papers that met all good practice criteria examined for all image-based figures were uncommon (physiology 16%, cell biology 12%, plant sciences 2%). We present detailed descriptions and visual examples to help scientists avoid common pitfalls when publishing images. Our recommendations address image magnification, scale information, insets, annotation, and color and may encourage discussion about quality standards for bioimage publishing.

]]> <![CDATA[A direct comparison of theory-driven and machine learning prediction of suicide: A meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249833 Theoretically-driven models of suicide have long guided suicidology; however, an approach employing machine learning models has recently emerged in the field. Some have suggested that machine learning models yield improved prediction as compared to theoretical approaches, but to date, this has not been investigated in a systematic manner. The present work directly compares widely researched theories of suicide (i.e., BioSocial, Biological, Ideation-to-Action, and Hopelessness Theories) to machine learning models, comparing the accuracy between the two differing approaches. We conducted literature searches using PubMed, PsycINFO, and Google Scholar, gathering effect sizes from theoretically-relevant constructs and machine learning models. Eligible studies were longitudinal research articles that predicted suicide ideation, attempts, or death published prior to May 1, 2020. 124 studies met inclusion criteria, corresponding to 330 effect sizes. Theoretically-driven models demonstrated suboptimal prediction of ideation (wOR = 2.87; 95% CI, 2.65–3.09; k = 87), attempts (wOR = 1.43; 95% CI, 1.34–1.51; k = 98), and death (wOR = 1.08; 95% CI, 1.01–1.15; k = 78). Generally, Ideation-to-Action (wOR = 2.41, 95% CI = 2.21–2.64, k = 60) outperformed Hopelessness (wOR = 1.83, 95% CI 1.71–1.96, k = 98), Biological (wOR = 1.04; 95% CI .97–1.11, k = 100), and BioSocial (wOR = 1.32, 95% CI 1.11–1.58, k = 6) theories. Machine learning provided superior prediction of ideation (wOR = 13.84; 95% CI, 11.95–16.03; k = 33), attempts (wOR = 99.01; 95% CI, 68.10–142.54; k = 27), and death (wOR = 17.29; 95% CI, 12.85–23.27; k = 7). Findings from our study indicated that across all theoretically-driven models, prediction of suicide-related outcomes was suboptimal. Notably, among theories of suicide, theories within the Ideation-to-Action framework provided the most accurate prediction of suicide-related outcomes. When compared to theoretically-driven models, machine learning models provided superior prediction of suicide ideation, attempts, and death.

]]> <![CDATA[Reporting health services research to a broader public: An exploration of inconsistencies and reporting inadequacies in societal publications]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0248753

Introduction

Little is known about the accuracy of societal publications (e.g. press releases, internet postings or professional journals) that are based on scientific work. This study investigates a) inconsistencies between scientific peer-reviewed health services research (HSR) publications and non-scientific societal publications and b) replication of reporting inadequacies from these scientific publications to corresponding societal publications.

Methods

A sample of HSR publications was drawn from 116 publications authored in 2016 by thirteen Dutch HSR institutions. Societal publications corresponding to scientific publications were identified through a systematic internet search. We conducted a qualitative, directed content analysis on societal publications derived from the scientific publications to assess both reporting inadequacies and determine inconsistencies. Descriptive frequencies were calculated for all variables. Odds ratios were used to investigate whether inconsistencies in societal publications were less likely when the first scientific author was involved.

Results

We identified 43 scientific and 156 societal publications. 94 societal publications (60.3%), (associated with 32 scientific publications (74.4%)) contained messages that were inconsistent with the scientific work. We found reporting inadequacies in 22 scientific publications (51.2%). In 45 societal publications (28.9%), we found replications of these reporting inadequacies. The likelihood of inconsistencies between scientific and societal publications did not differ when the latter explicitly involved the first scientific author, (OR = 1.44, CI: 0.76–2.74); were published on the institute’s or funder’s website, (OR = 1.32, CI: 0.57–3.06); published with no involvement of a scientific author, (OR = 0.52, CI: 0.25–1.07).

Conclusion

To improve societal publications, one should examine both the consistency with scientific research publications and ways to prevent replication of scientific reporting inadequacies. HSR institutions, funders, and scientific and societal publication platforms should invest in a supportive publication culture to further incentivise the responsible and skilled involvement of researchers in writing both scientific and societal publications.

]]> <![CDATA[Balancing the need for seed against invasive species risks in prairie habitat restorations]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0248583 Adequate diversity and abundance of native seed for large-scale grassland restorations often require commercially produced seed from distant sources. However, as sourcing distance increases, the likelihood of inadvertent introduction of multiple novel, non-native weed species as seed contaminants also increases. We created a model to determine an “optimal maximum distance” that would maximize availability of native prairie seed from commercial sources while minimizing the risk of novel invasive weeds via contamination. The model focused on the central portion of the Level II temperate prairie ecoregion in the Midwest US. The median optimal maximum distance from which to source seed was 272 km (169 miles). In addition, we weighted the model to address potential concerns from restoration practitioners: 1. sourcing seed via a facilitated migration strategy (i.e., direct movement of species from areas south of a given restoration site to assist species’ range expansion) to account for warming due to climate change; and 2. emphasizing non-native, exotic species with a federal mandate to control. Weighting the model for climate change increased the median optimal maximum distance to 398 km (247 miles), but this was not statistically different from the distance calculated without taking sourcing for climate adaptation into account. Weighting the model for federally mandated exotic species increased the median optimal maximum distance only slightly to 293 km (182 miles), so practitioners may not need to adjust their sourcing strategy, compared to the original model. This decision framework highlights some potential inadvertent consequences from species translocations and provides insight on how to balance needs for prairie seed against those risks.

]]> <![CDATA[The effect of Moringa oleifera capsule in increasing breastmilk volume in early postpartum patients: A double-blind, randomized controlled trial]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0248950 Moringa oleifera is an herbal galactagogue that has been used to increase the volume of breastmilk. Few studies have evaluated the effect of Moringa oleifera in breastfeeding. There are conflicting data whether it can increase the volume of breastmilk or not. Thus, the objective of this study is to evaluate the efficacy of Moringa oleifera leaves in increasing the volume of breastmilk in early postpartum mothers. A randomized, double-blind, placebo-controlled trial will be conducted. The outcomes of this study will provide the data of Moringa oleifera as an herbal medication to increase the volume of breastmilk. This information will be used to increase the rate of exclusive breastfeeding for the first 6 months as recommended by the World Health Organization.

Clinical trial registration

This clinical trial was registered at ClinicalTrials.gov (Clinical trials registration: NCT04487613).

]]> <![CDATA[Effects of dietary chromium picolinate supplementation on broiler growth performance: A meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0249527

Objective

A meta-analysis was conducted to assess the effects of dietary chromium picolinate (CrPic) supplementation on broiler growth performance and to determine whether such effects are regulated by broiler strains, sex, environmental stress, or contextual factors including study area and years.

Methods

Eligible studies were identified by searching the Web of Science, Springer, Elsevier, ScienceDirect, Taylor & Francis Online databases. Weighted average differences with corresponding 95% confidence intervals were computed with a random-effects model. We performed subgroup analysis stratified by study area, published years, broiler strains and sex, and environmental stress. Publication bias was assessed with Egger’s test method. A total of 15 studies eligible for inclusion.

Results

The results indicated that CrPic supplementation significantly improved broiler growth performance and subgroup analysis confirmed this conclusion. We also found that Ross 308 or male broilers might be more sensitive to CrPic supplementation and showed better growth performance. A model was used to obtain the amount of chromium addition under the optimal growth performance, which suggested that the maximum value of average daily gain (ADG) was reached when chromium addition was 1810 μg/kg. The results of the sensitivity analysis showed low sensitivity and high stability of the meta-analysis.

Conclusions

CrPic supplementation had a positive effect on the growth performance of broilers, and this meta-analysis provides a more accurate value of chromium addition, which may be beneficial for the practice of the broiler industry.

]]> <![CDATA[How <i>PLOS Biology</i> aims to foster diversity, equity and inclusion in science]]> https://www.novareader.co/book/isbn/10.1371/journal.pbio.3001102 A diverse scientific community is not only fairer but also improves science overall by bringing a richer range of perspectives to the research enterprise. Here, we discuss steps that PLOS Biology is taking to support diversity, equity and inclusion at the journal and beyond.

]]> <![CDATA[Rebuild the Academy: Supporting academic mothers during COVID-19 and beyond]]> https://www.novareader.co/book/isbn/10.1371/journal.pbio.3001100 The issues facing academic mothers have been discussed for decades. Coronavirus Disease 2019 (COVID-19) is further exposing these inequalities as womxn scientists who are parenting while also engaging in a combination of academic related duties are falling behind. These inequities can be solved by investing strategically in solutions. Here we describe strategies that would ensure a more equitable academy for working mothers now and in the future. While the data are clear that mothers are being disproportionately impacted by COVID-19, many groups could benefit from these strategies. Rather than rebuilding what we once knew, let us be the architects of a new world.

The COVID-19 pandemic is highlighting the many long-standing inequalities that academic mothers face. This Essay describes solutions for a more equitable academia, now and in the future, maintaining that rather than rebuilding what we once knew, we should be the architects of a new world.

]]> <![CDATA[Visible name changes promote inequity for transgender researchers]]> https://www.novareader.co/book/isbn/10.1371/journal.pbio.3001104 Allowing for invisible name changes is a matter of dignity for trans researchers. This would prevent their own publication record from outing them without their consent. A single, centralized name change request through ORCID iD would alleviate the burden of changing each publication individually.

Academic journals allowing for invisible name changes is a matter of fundamental respect and dignity for trans researchers, but there are currently no acceptable choices when dealing with name changes in a publishing record. This Perspective article proposes a centralized name change solution through ORCID iD to relieve the burden on trans researchers to contact every journal they have previously published with.

]]> <![CDATA[A decade of theory as reflected in <i>Psychological Science</i> (2009–2019)]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247986 The dominant belief is that science progresses by testing theories and moving towards theoretical consensus. While it’s implicitly assumed that psychology operates in this manner, critical discussions claim that the field suffers from a lack of cumulative theory. To examine this paradox, we analysed research published in Psychological Science from 2009–2019 (N = 2,225). We found mention of 359 theories in-text, most were referred to only once. Only 53.66% of all manuscripts included the word theory, and only 15.33% explicitly claimed to test predictions derived from theories. We interpret this to suggest that the majority of research published in this flagship journal is not driven by theory, nor can it be contributing to cumulative theory building. These data provide insight into the kinds of research psychologists are conducting and raises questions about the role of theory in the psychological sciences.

]]> <![CDATA[Attention based GRU-LSTM for software defect prediction]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247444 Software defect prediction (SDP) can be used to produce reliable, high-quality software. The current SDP is practiced on program granular components (such as file level, class level, or function level), which cannot accurately predict failures. To solve this problem, we propose a new framework called DP-AGL, which uses attention-based GRU-LSTM for statement-level defect prediction. By using clang to build an abstract syntax tree (AST), we define a set of 32 statement-level metrics. We label each statement, then make a three-dimensional vector and apply it as an automatic learning model, and then use a gated recurrent unit (GRU) with a long short-term memory (LSTM). In addition, the Attention mechanism is used to generate important features and improve accuracy. To verify our experiments, we selected 119,989 C/C++ programs in Code4Bench. The benchmark tests cover various programs and variant sets written by thousands of programmers. As an evaluation standard, compared with the state evaluation method, the recall, precision, accuracy and F1 measurement of our well-trained DP-AGL under normal conditions have increased by 1%, 4%, 5%, and 2% respectively.

]]> <![CDATA[Stochastic simulation algorithms for Interacting Particle Systems]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247046 Interacting Particle Systems (IPSs) are used to model spatio-temporal stochastic systems in many disparate areas of science. We design an algorithmic framework that reduces IPS simulation to simulation of well-mixed Chemical Reaction Networks (CRNs). This framework minimizes the number of associated reaction channels and decouples the computational cost of the simulations from the size of the lattice. Decoupling allows our software to make use of a wide class of techniques typically reserved for well-mixed CRNs. We implement the direct stochastic simulation algorithm in the open source programming language Julia. We also apply our algorithms to several complex spatial stochastic phenomena. including a rock-paper-scissors game, cancer growth in response to immunotherapy, and lipid oxidation dynamics. Our approach aids in standardizing mathematical models and in generating hypotheses based on concrete mechanistic behavior across a wide range of observed spatial phenomena.

]]> <![CDATA[BC-store: A program for MGISEQ barcode sets analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247532 Here we present the devised BC-store–a program for analyzing and selecting sets of barcodes for sequencing on platforms manufactured by MGI Tech (China). The app is available as an open source in Python3 and as a desktop version. The application allows analyzing the compatibility of barcodes on a single lane of a flow cell in a set in the case of equal and arbitrary fractions. In addition, with the help of this tool barcodes can be added to an existing set with custom share options. In this paper we describe how BC-store works for different tasks and consider the effectiveness of using BC-store in sequence lab routine tasks.

The performance of modern NGS machines allows considerable amount of data to be obtained which exceed the data required for one specific sample. To pool multiple samples on a single lane of the flow cell, barcoding is used–adapters carrying a unique nucleotide sequence are introduced by ligation [1]. Adapters are sequenced from their specific primers. Their sequences are used for demultiplexing the sequencing results for individual fastq files by programs like zebracall [2] or bcl2fastq [3]. The task of selecting the adapters for a set is similar to sequencing low diversity libraries [4]: if all adapters on the lane have the same nucleotide during this sequencing cycle, the quality of its reading drops dramatically. Therefore, manufacturers recommend grouping the adapters by sets. However, the sets offered by MGI Tech [5] are far from routine practice, as they do not allow for non-equimolar sample pooling by default, and they have other disadvantages (more on them later in the text). To overcome these problems, we created the BC-store program, which allows analyzing the sets of MGI Tech barcodes entered by the user to be further used in sequencing. This tool also provides the opportunity to vary the number of simultaneously sequenced samples, to use reagents more efficiently, and, as a result, to correctly distribute reads across samples, which helps to increase both the quality of sequencing and the level of data interpretation.

]]> <![CDATA[Subjective caregiver burden and anxiety in informal caregivers: A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247143 There is increasing evidence that subjective caregiver burden is an important determinant of clinically significant anxiety in family carers. This meta-analysis aims to synthesise this evidence and investigate the relationship between subjective caregiver burden and anxiety symptoms in informal caregivers. We searched PubMed, CINAHL and PsycINFO up to January 2020. Combined estimates were obtained using a random-effects model. After screening of 4,312 articles, 74 studies (with 75 independent samples) were included. There was a large, positive association between subjective caregiver burden and anxiety symptoms (r = 0.51; 95% CI = 0.47, 0.54; I2 = 0.0%). No differences were found in subgroup analyses by type of study design (cross-sectional vs. longitudinal), sampling, control of confounders or care-recipient characteristics. Subjective caregiver burden is an important risk factor for anxiety in informal caregivers. Targeting subjective caregiver burden could be beneficial in preventing clinically significant anxiety for the increasing number of family carers worldwide.

]]> <![CDATA[Tools for mapping multi-scale settlement patterns of building footprints: An introduction to the R package <i>foot</i>]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247535 Spatial datasets of building footprint polygons are becoming more widely available and accessible for many areas in the world. These datasets are important inputs for a range of different analyses, such as understanding the development of cities, identifying areas at risk of disasters, and mapping the distribution of populations. The growth of high spatial resolution imagery and computing power is enabling automated procedures to extract and map building footprints for whole countries. These advances are enabling coverage of building footprint datasets for low and middle income countries which might lack other data on urban land uses. While spatially detailed, many building footprints lack information on structure type, local zoning, or land use, limiting their application. However, morphology metrics can be used to describe characteristics of size, shape, spacing, orientation and patterns of the structures and extract additional information which can be correlated with different structure and settlement types or neighbourhoods. We introduce the foot package, a new set of open-source tools in a flexible R package for calculating morphology metrics for building footprints and summarising them in different spatial scales and spatial representations. In particular our tools can create gridded (or raster) representations of morphology summary metrics which have not been widely supported previously. We demonstrate the tools by creating gridded morphology metrics from all building footprints in England, Scotland and Wales, and then use those layers in an unsupervised cluster analysis to derive a pattern-based settlement typology. We compare our mapped settlement types with two existing settlement classifications. The results suggest that building patterns can help distinguish different urban and rural types. However, intra-urban differences were not well-predicted by building morphology alone. More broadly, though, this case study demonstrates the potential of mapping settlement patterns in the absence of a housing census or other urban planning data.

]]> <![CDATA[Ten simple rules for hosting artists in a scientific lab]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008675 <![CDATA[Using prototyping to choose a bioinformatics workflow management system]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008622 Workflow management systems represent, manage, and execute multistep computational analyses and offer many benefits to bioinformaticians. They provide a common language for describing analysis workflows, contributing to reproducibility and to building libraries of reusable components. They can support both incremental build and re-entrancy—the ability to selectively re-execute parts of a workflow in the presence of additional inputs or changes in configuration and to resume execution from where a workflow previously stopped. Many workflow management systems enhance portability by supporting the use of containers, high-performance computing (HPC) systems, and clouds. Most importantly, workflow management systems allow bioinformaticians to delegate how their workflows are run to the workflow management system and its developers. This frees the bioinformaticians to focus on what these workflows should do, on their data analyses, and on their science.

RiboViz is a package to extract biological insight from ribosome profiling data to help advance understanding of protein synthesis. At the heart of RiboViz is an analysis workflow, implemented in a Python script. To conform to best practices for scientific computing which recommend the use of build tools to automate workflows and to reuse code instead of rewriting it, the authors reimplemented this workflow within a workflow management system. To select a workflow management system, a rapid survey of available systems was undertaken, and candidates were shortlisted: Snakemake, cwltool, Toil, and Nextflow. Each candidate was evaluated by quickly prototyping a subset of the RiboViz workflow, and Nextflow was chosen. The selection process took 10 person-days, a small cost for the assurance that Nextflow satisfied the authors’ requirements. The use of prototyping can offer a low-cost way of making a more informed selection of software to use within projects, rather than relying solely upon reviews and recommendations by others.

Data analysis involves many steps, as data are wrangled, processed, and analysed using a succession of unrelated software packages. Running the right steps, in the right order, and putting the right outputs in the right places, is a major source of frustration. Workflow management systems require that each data analysis step be “wrapped” in a structured way, describing its inputs, parameters, and outputs. By writing these wrappers, the scientist can focus on the meaning of each step, and how they fit together, which is the interesting part. The system uses these wrappers to decide what steps to run and how to run these and takes charge of running the steps, including reporting on errors. This makes it much easier to repeatedly run the analysis and to run it transparently upon different computers. To select a workflow management system, we surveyed available tools and chose 4 in which we developed prototype implementations to evaluate their suitability for our project. We conclude that many similar multistep data analysis workflows can be rewritten in a workflow management system, and we advocate prototyping as a low-cost (both time and effort) way of making an informed selection of software for use within a research project.

]]> <![CDATA[Effect size, sample size and power of forced swim test assays in mice: Guidelines for investigators to optimize reproducibility]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243668 A recent flood of publications has documented serious problems in scientific reproducibility, power, and reporting of biomedical articles, yet scientists persist in their usual practices. Why? We examined a popular and important preclinical assay, the Forced Swim Test (FST) in mice used to test putative antidepressants. Whether the mice were assayed in a naïve state vs. in a model of depression or stress, and whether the mice were given test agents vs. known antidepressants regarded as positive controls, the mean effect sizes seen in the experiments were indeed extremely large (1.5–2.5 in Cohen’s d units); most of the experiments utilized 7–10 animals per group which did have adequate power to reliably detect effects of this magnitude. We propose that this may at least partially explain why investigators using the FST do not perceive intuitively that their experimental designs fall short—even though proper prospective design would require ~21–26 animals per group to detect, at a minimum, large effects (0.8 in Cohen’s d units) when the true effect of a test agent is unknown. Our data provide explicit parameters and guidance for investigators seeking to carry out prospective power estimation for the FST. More generally, altering the real-life behavior of scientists in planning their experiments may require developing educational tools that allow them to actively visualize the inter-relationships among effect size, sample size, statistical power, and replicability in a direct and intuitive manner.

]]> <![CDATA[What really impacts the use of active learning in undergraduate STEM education? Results from a national survey of chemistry, mathematics, and physics instructors]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247544 Six common beliefs about the usage of active learning in introductory STEM courses are investigated using survey data from 3769 instructors. Three beliefs focus on contextual factors: class size, classroom setup, and teaching evaluations; three focus on individual factors: security of employment, research activity, and prior exposure. The analysis indicates that instructors in all situations can and do employ active learning in their courses. However, with the exception of security of employment, trends in the data are consistent with beliefs about the impact of these factors on usage of active learning. We discuss implications of these results for institutional and departmental policies to facilitate the use of active learning.

]]> <![CDATA[Accuracy and precision of citizen scientist animal counts from drone imagery]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244040 Repeated counts of animal abundance can reveal changes in local ecosystem health and inform conservation strategies. Unmanned aircraft systems (UAS), also known as drones, are commonly used to photograph animals in remote locations; however, counting animals in images is a laborious task. Crowd-sourcing can reduce the time required to conduct these censuses considerably, but must first be validated against expert counts to measure sources of error. Our objectives were to assess the accuracy and precision of citizen science counts and make recommendations for future citizen science projects. We uploaded drone imagery from Año Nuevo Island (California, USA) to a curated Zooniverse website that instructed citizen scientists to count seals and sea lions. Across 212 days, over 1,500 volunteers counted animals in 90,000 photographs. We quantified the error associated with several descriptive statistics to extract a single citizen science count per photograph from the 15 repeat counts and then compared the resulting citizen science counts to expert counts. Although proportional error was relatively low (9% for sea lions and 5% for seals during the breeding seasons) and improved with repeat sampling, the 12+ volunteers required to reduce error was prohibitively slow, taking on average 6 weeks to estimate animals from a single drone flight covering 25 acres, despite strong public outreach efforts. The single best algorithm was ‘Median without the lowest two values’, demonstrating that citizen scientists tended to under-estimate the number of animals present. Citizen scientists accurately counted adult seals, but accuracy was lower when sea lions were present during the summer and could be confused for seals. We underscore the importance of validation efforts and careful project design for researchers hoping to combine citizen science with imagery from drones, occupied aircraft, and/or remote cameras.

]]> <![CDATA[Honest signaling in academic publishing]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246675 Academic journals provide a key quality-control mechanism in science. Yet, information asymmetries and conflicts of interests incentivize scientists to deceive journals about the quality of their research. How can honesty be ensured, despite incentives for deception? Here, we address this question by applying the theory of honest signaling to the publication process. Our models demonstrate that several mechanisms can ensure honest journal submission, including differential benefits, differential costs, and costs to resubmitting rejected papers. Without submission costs, scientists benefit from submitting all papers to high-ranking journals, unless papers can only be submitted a limited number of times. Counterintuitively, our analysis implies that inefficiencies in academic publishing (e.g., arbitrary formatting requirements, long review times) can serve a function by disincentivizing scientists from submitting low-quality work to high-ranking journals. Our models provide simple, powerful tools for understanding how to promote honest paper submission in academic publishing.

]]> <![CDATA[Training early career researchers to use meta-research to improve science: A participant-guided “learn by doing” approach]]> https://www.novareader.co/book/isbn/10.1371/journal.pbio.3001073 Meta-research, or the science of science, is a powerful technique that scientists can use to improve science, however most scientists are unaware that meta-research exists and courses are rare. This initiative demonstrates the feasibility of a participant-guided “learn by doing” approach, in which a multidisciplinary, global team of early career researchers learned meta-research skills by working together to design, conduct and publish a meta-research study.

This Community Page article describes a participant-guided "learn by doing" initiative, in which a multidisciplinary, global team of early career researchers learned meta-research skills by working together to design, conduct and publish a meta-research (science of science) study. Participants can now apply these skills to solve problems in their own fields.

]]> <![CDATA[Exploring the gender gap in the Spanish Wikipedia: Differences in engagement and editing practices]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246702 Wikipedia’s significant gender bias is widely acknowledged. In this paper we analyze the Spanish Wikipedia with the aim of estimating the percentage of women editors and measuring their engagement and editing practices with respect to their men counterparts. To identify the gender of Wikipedia registered users, we analyzed both the information contained in their user profile and the information provided by users about themselves on their personal user pages. Using our own coding procedure, it is possible to identify a greater number of women than by relying only on the gender reported in their user profile. Combining both methods, our results show that the percentage of women is small, a meagre 11.6% of all analyzed editors, though there is still a significant percentage of users whose gender cannot be determined by either method. Men outnumber women in all Wikipedia namespaces in a ratio that is always equal to or greater than 3:1. This fact can be partially explained by the lesser persistence of women editors, who tend to leave Wikipedia much more quickly. There is, however, a small group of veteran women editors who, in some cases, surpass men editors in terms of their editing practices and participation in different Wikipedia namespaces.

]]> <![CDATA[Who is (not) complying with the U. S. social distancing directive and why? Testing a general framework of compliance with virtual measures of social distancing]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247520 A study involving over 2000 online participants (US residents) tested a general framework regarding compliance with a directive in the context of the COVID-19 pandemic. The study featured not only a self-report measure of social distancing but also virtual behavior measures—simulations that presented participants with graphical depictions mirroring multiple real-world scenarios and asked them to position themselves in relation to others in the scene. The conceptual framework highlights three essential components of a directive: (1) the source, some entity is advocating for a behavioral change; (2) the surrounding context, the directive is in response to some challenge; and (3) the target, the persons to whom the directive is addressed. Belief systems relevant to each of these three components are predicted, and were found, to relate to compliance with the social distancing directive. The implications of the findings for public service campaigns encouraging people to engage in social distancing are discussed.

]]> <![CDATA[FastTrack: An open-source software for tracking varying numbers of deformable objects]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008697 Analyzing the dynamical properties of mobile objects requires to extract trajectories from recordings, which is often done by tracking movies. We compiled a database of two-dimensional movies for very different biological and physical systems spanning a wide range of length scales and developed a general-purpose, optimized, open-source, cross-platform, easy to install and use, self-updating software called FastTrack. It can handle a changing number of deformable objects in a region of interest, and is particularly suitable for animal and cell tracking in two-dimensions. Furthermore, we introduce the probability of incursions as a new measure of a movie’s trackability that doesn’t require the knowledge of ground truth trajectories, since it is resilient to small amounts of errors and can be computed on the basis of an ad hoc tracking. We also leveraged the versatility and speed of FastTrack to implement an iterative algorithm determining a set of nearly-optimized tracking parameters—yet further reducing the amount of human intervention—and demonstrate that FastTrack can be used to explore the space of tracking parameters to optimize the number of swaps for a batch of similar movies. A benchmark shows that FastTrack is orders of magnitude faster than state-of-the-art tracking algorithms, with a comparable tracking accuracy. The source code is available under the GNU GPLv3 at https://github.com/FastTrackOrg/FastTrack and pre-compiled binaries for Windows, Mac and Linux are available at http://www.fasttrack.sh.

Many researchers and engineers face the challenge of tracking objects from very different systems across several fields of research. We observed that despite this diversity the core of the tracking task is very general and can be formalized. We thus introduce the notion of incursions—i.e. to what extent an object can enter a neighbor’s space—which can be defined on a statistical basis and captures the interplay between the acquisition rate, the objects’ dynamics and the geometrical characteristics of the scene, including density. To validate this approach, we compiled a dataset from various fields of Physics, Biology and human activities to serve as a benchmark for general-purpose tracking softwares. This dataset is open and accepts new submissions. We also developped a software called FastTrack that is able to track most of the movies in the dataset by proposing standard image processing tools and state-of-the-art implementation of the matching algorithm, which is at the core of the tracking task. Besides, it is open-source, simple to install and use and has an ergonomic interface to obtain fast and reliable results. FastTrack is particularly convenient for small-scale research projects, typically when the development of a dedicated software is overkill.

]]> <![CDATA[Resource allocation for depression management in general practice: A simple data-based filter model]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246728

Background

This study aimed to illustrate the potential utility of a simple filter model in understanding the patient outcome and cost-effectiveness implications for depression interventions in primary care.

Methods

Modelling of hypothetical intervention scenarios during different stages of the treatment pathway was conducted.

Results

Three scenarios were developed for depression related to increasing detection, treatment response and treatment uptake. The incremental costs, incremental number of successes (i.e., depression remission) and the incremental costs-effectiveness ratio (ICER) were calculated. In the modelled scenarios, increasing provider treatment response resulted in the greatest number of incremental successes above baseline, however, it was also associated with the greatest ICER. Increasing detection rates was associated with the second greatest increase to incremental successes above baseline and had the lowest ICER.

Conclusions

The authors recommend utility of the filter model to guide the identification of areas where policy stakeholders and/or researchers should invest their efforts in depression management.

]]> <![CDATA[Comment on the paper "Cost-effectiveness of sofosbuvir in hepatitis C genotype 1 infection in Germany: A reanalysis of published results"]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245480 <![CDATA[Ten simple rules for navigating the computational aspect of an interdisciplinary PhD]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008554 <![CDATA[Knowledge, attitude and practice towards COVID-19 among health professionals in Ethiopia: A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247204

Background

The World Health Organization (WHO) declared coronavirus disease 2019 (COVID-19) a global pandemic on 11th March, 2020. In Ethiopia, more than 90,490 and 1,300 confirmed cases and deaths were reported by the Federal Ministry of Health at the time of writing up this project. As health care providers are frontline workers managing the COVID-19 pandemic, this systematic review and meta-analysis aimed to assess the pooled level of knowledge, attitude, and practice towards COVID-19 among health professionals in Ethiopia.

Methods

PubMed, Google Scholar, Excerpta Medica database (EMBASE), Cochrane Library, Web of Science, and African Journal of Online (AJOL) were searched. The data were extracted using Microsoft Excel and analyzed using STATA version 14. Publication bias was checked by funnel plot and more objectively through Egger’s regression test, with P < 0.05 considered to indicate potential publication bias. The heterogeneity of studies was checked using I2 statistics. Pooled analysis was conducted using a weighted inverse variance random-effects model. Subgroup analysis was done related to geographic region and time. A leave-one-out sensitivity analysis was also employed.

Result

A total of 11 studies with 3,843 study participants for knowledge, eight studies with 2,842 study participants for attitude and 10 studies with 3, 435 study participants for practice were used to estimate the pooled level of good knowledge, positive attitude and poor practice among health professionals. The overall estimated good level of knowledge, positive attitude and poor practice towards COVID-19 was found to be 79.4% (95% CI: 73.5%-85.2%; I2 = 96%), 73.7% (95%CI: 63.09%-84.4%; I2 = 98.3%) and 40.3% (95%CI: 31.1%-49.6%; I2 = 97.1%) respectively.

Conclusion

Study findings showed that there were significant gaps in COVID-19 related knowledge, attitude and practice with respect to World Health Organization recommendations on COVID-19 management and personal protection practices. This study therefore recommends that institutions provide with immediate effect accurate and up-to-date information on COVID-19 and training that encourages improved knowledge, attitude and practice to mitigate this pandemic.

]]> <![CDATA[Ten simple rules for starting (and sustaining) an academic data science initiative]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008628 <![CDATA[Assessment of research ethics education offerings of pharmacy master programs in an Arab nation relative to top programs worldwide: A qualitative content analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0238755 The importance of research ethics (RE) training has led academic and funding institutions to require that students, trainees, and faculty obtain such training at various stages of their careers. Despite the increasing awareness of the value RE education offers, this training requirement is absent in Jordan. We aimed to assess RE education offerings of pharmacy master programs in Jordan and compare with the top-ranked pharmacy graduate programs globally. Therefore, a list of universities that offer research-based pharmacy master programs was created. Each program was evaluated for the inclusion of RE education. A qualitative content analysis approach based on inductive reasoning and latent analysis was followed to analyze the data. Results of the study showed a lack of appropriate RE education for graduate-level pharmacy programs in Jordan with only 40% of the programs partially discuss selected topics related to RE. Regarding pharmacy graduate programs globally, 10% offer a standalone RE course, 40% offer some discussions related to RE, another 10% do not offer RE education in any form, and the remaining 40% of the programs were difficult to assess due to lack of sufficient information available online. Based on the findings of this study, training in RE is tends to be lacking in pharmacy graduate programs in Jordan and globally, with a greater lack in Jordan than globally. There is a need to incorporate formal RE education into programs that do not offer this type of instruction. Programs that formally touch on some aspects of RE need to expand the scope of topics to include more RE-related themes. Integrating a standalone RE course into pharmacy graduate programs is highly encouraged.

]]> <![CDATA[Those who ignore the past are doomed…to be heartless: Lay historicist theory is associated with humane responses to the struggles and transgressions of others]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246882 When one learns that current struggles or transgressions of an individual or group are rooted in an unfortunate history, one experiences compassion and reduced blame. Prior research has demonstrated this by having participants receive (or not) a concrete historicist narrative regarding the particular individual or group under consideration. Here, we take a different approach. We explore the possibility that everyday people show meaningful variation in a broad lay theory that we call lay historicism. Lay historicists believe that—as a general fact—people’s psychological characteristics and life outcomes are powerfully molded by their life histories. We present eight studies linking lay historicism to broad tendencies toward compassion and non-blaming. Collectively, Studies 1–5 suggest that lay historicism affects compassion and blame, respectively, via distinct mechanisms: (1) Lay historicism is associated with compassion because it creates a sense that—as a general fact—past suffering lies behind present difficulties, and (2) lay historicism is associated with blame mitigation because historicists reject the idea that—as a general fact—people freely and autonomously create their moral character. Thus, lay historicism increases compassion and decreases blame via distinct mechanisms. The remaining studies diversify our evidence base. Study 6 examines criminal justice philosophies rather than broad moral traits (as in the earlier studies) and shows that lay historicism is associated with preference for humane criminal justice philosophies. Study 7 moves from abstract beliefs to concrete situations and shows that lay historicism predicts reduced blaming of an irresponsible peer who is encountered face-to-face. One additional study—in our Supplemental Materials—shows that lay historicism predicts lower levels of blaming on implicit measures, although only among those who also reject lay controllability theories. Overall, these studies provide consistent support for the possibility that lay historicism is broadly associated with humane responding to the struggles and transgressions of others.

]]> <![CDATA[Monitoring beam-quality constancy considering uncertainties associated with ionization chambers in Daily QA3 device]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246845 This study evaluates the changes occurring in the X-ray energy of a linear accelerator (LINAC) using a Daily QA3 detector system. This is accomplished by comparing the Daily QA3 results against those obtained using a water phantom. The X-energy levels of a LINAC were monitored over a duration of 1 month using the Daily QA3 system. Moreover, to account for the uncertainty, the reproducibility of the Daily QA3 ionization-chamber results was assessed by performing repeated measurements (12 per day). Subsequently, the energy-monitoring results were compared with the energy-change results calculated using the water-phantom percentage depth dose (PDD) ratio. As observed, the 6- and 10-MV beams experienced average daily energy-level changes of (-0.30 ± 0.32)% and (0.05 ± 0.38)%, respectively, during repeated measurements. The corresponding energy changes equaled (-0.30 ± 0.55)% and (-0.05 ± 0.48)%, respectively, when considering the measurement uncertainty. The Daily QA3 measurements performed at 6 MV demonstrated a variation of (2.15 ± 0.81)% (i.e., up to 3%). Meanwhile, the corresponding measurements performed using a water phantom demonstrated an increase in the PDD ratio from 0.577 to 0.580 (i.e., approximately 0.5%). At 10 MV, the energy variation in the Daily QA3 measurements equaled (-0.41 ± 0.82)% (i.e., within 1.5%), whereas the corresponding water phantom PDD ratio remained constant at 0.626. These results reveal that the Daily QA3 system can be used to monitor small energy changes occurring within radiotherapy machines. This demonstrates its potential for use as a secondary system for monitoring energy changes as part of the daily quality-assurance workflow.

]]> <![CDATA[Ten simple rules for running and managing virtual internships]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008599 <![CDATA[Posterior circulation acute stroke prognosis early CT scores in predicting functional outcomes: A meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246906

Background and purpose

Patients with posterior circulation acute ischemic stroke exhibit varied clinical presentations and functional outcomes. Whether posterior circulation acute stroke prognosis early computed tomography scores (PC-ASPECTS) predict unfavorable functional outcomes (UFO) for patients treated with different therapeutic regimens is unclear.

Methods

According to PRISMA guidelines, we performed a systematic search of electronic databases for studies assessing the functional outcomes of posterior circulation acute ischemic stroke using baseline PC-ASPECTS. The following three scales of PC-ASPECTS were retrieved: UFO prediction by using PC-ASPECTS per score decrease, UFO prediction by using binary PC-ASPECTS with a cut-off value, and the difference in PC-ASPECTS between patients with unfavorable and favorable functional outcomes. Moreover, a subgroup analysis was conducted for patients treated with intra-arterial endovascular treatment (IA-EVT) only. Sensitivity analysis with different definition of UFO and image modalities were also conducted.

Results

In total, 25 studies were included. In scale 1, PC-ASPECTS significantly predicted UFO (odds ratio [OR]: 1.66 per score decrease, 95% confidence interval [CI]: 1.32–2.07). In scale 2, binary PC-ASPECTS with a cut-off value between 6 and 9 significantly predicted UFO (OR: 3.91, 95% CI: 2.54–6.01). In scale 3, patients with UFO had lower PC-ASPECTS than those with favorable outcomes (standardized mean difference [SMD]: −0.67, 95% CI: −0.8 to −0.55). For patients treated with IA-EVT only, the scales demonstrated consistent results. Sensitivity analysis showed PC-ASPECTS significantly predicted UFO in both definitions of modified Rankin Scale ≥ 3 and ≥ 4, and magnetic resonance imaging was preferred imaging modality for PC-ASPECTS evaluation.

Conclusion

Baseline PC-ASPECTS is effective in predicting UFO for patients with posterior circulation acute ischemic stroke treated with different therapeutic regimens.

]]> <![CDATA[Availability of adequately iodized salt at the household level in Ethiopia: A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0247106

Background

Iodine deficiency disorder (IDD) is a global, regional, and national public health problem that is preventable. Universal salt iodization is a worldwide accepted strategy to prevent IDD. The level of iodine in the salt should be adequate at the household level (≥15ppm). Though there was fragmented evidence on the proportion of adequately iodized salt at the household level in Ethiopia, the national level proportion of adequately iodized salt at the household level was remaining unknown. Therefore, this systematic review and meta-analysis estimated the pooled proportion of adequately iodized salt at the household level in Ethiopia from 2013–2020.

Method

We systematically searched the databases: PubMed/MEDLINE, Google Scholar, and Science Direct for studies conducted in Ethiopia on the availability of adequately iodized salt at the household level since 2013. We have included observational studies, which were published between January first, 2013, and 10 August 2020. The report was compiled according to the Preferred Reporting Items for Systematic Reviews and Meta-Analysis (PRISMA) guidelines. The quality of included studies was scored based on the Newcastle Ottawa quality assessment scale adapted for cross-sectional studies. The data were extracted in Microsoft excel and analyzed using Stata version 14.1 software. We employed a random-effects model to estimate the pooled proportion of adequately iodized salt at the household level in Ethiopia. The presence of statistical heterogeneity within the included studies was evaluated using the I-squared statistic. We used Egger’s regression test to identify evidence of publication bias. The pooled proportion with a 95% confidence interval (CI) was presented using tables and forest plots.

Results

We screened a total of 195 articles. Of these, 28 studies (with 15561 households) were included in the final systematic review and meta-analysis. In Ethiopia, the pooled proportion of adequately iodized salt at the household level was 37% (95% CI: 28, 46%). The subgroup analyses of 28 studies by residence revealed that the pooled proportion of adequately iodized salt at the household level was 32% (95% CI: 29, 35%) and 48% (95% CI: 31, 66%) in rural and urban areas, respectively. Based on geographic location, the highest proportion was found in Addis Ababa (81%; 95%CI: 78, 83), and the lowest proportion found in Dire Dawa (20%; 95%CI: 17, 22). Besides, the proportion of adequately iodized salt at the household level was significantly increased during 2017–2020 (42%; 95% CI: 30, 53%) as compared with 2013–2016 (27%; 95% CI: 17, 39%).

Conclusions

In Ethiopia, the pooled proportion of adequately iodized salt at the household level was very low as compared to the world health organization’s recommendation. Thus, the Federal Ministry of Health of Ethiopia and different stakeholders should give more attention to improve the proportion of adequately iodized salt at the household level.

]]> <![CDATA[Comparison of diagnostic performance between convolutional neural networks and human endoscopists for diagnosis of colorectal polyp: A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246892 Prospective randomized trials and observational studies have revealed that early detection, classification, and removal of neoplastic colorectal polyp (CP) significantly improve the prevention of colorectal cancer (CRC). The current effectiveness of the diagnostic performance of colonoscopy remains unsatisfactory with unstable accuracy. The convolutional neural networks (CNN) system based on artificial intelligence (AI) technology has demonstrated its potential to help endoscopists in increasing diagnostic accuracy. Nonetheless, several limitations of the CNN system and controversies exist on whether it provides a better diagnostic performance compared to human endoscopists. Therefore, this study sought to address this issue. Online databases (PubMed, Web of Science, Cochrane Library, and EMBASE) were used to search for studies conducted up to April 2020. Besides, the quality assessment of diagnostic accuracy scale-2 (QUADAS-2) was used to evaluate the quality of the enrolled studies. Moreover, publication bias was determined using the Deeks’ funnel plot. In total, 13 studies were enrolled for this meta-analysis (ranged between 2016 and 2020). Consequently, the CNN system had a satisfactory diagnostic performance in the field of CP detection (sensitivity: 0.848 [95% CI: 0.692–0.932]; specificity: 0.965 [95% CI: 0.946–0.977]; and AUC: 0.98 [95% CI: 0.96–0.99]) and CP classification (sensitivity: 0.943 [95% CI: 0.927–0.955]; specificity: 0.894 [95% CI: 0.631–0.977]; and AUC: 0.95 [95% CI: 0.93–0.97]). In comparison with human endoscopists, the CNN system was comparable to the expert but significantly better than the non-expert in the field of CP classification (CNN vs. expert: RDOR: 1.03, P = 0.9654; non-expert vs. expert: RDOR: 0.29, P = 0.0559; non-expert vs. CNN: 0.18, P = 0.0342). Therefore, the CNN system exhibited a satisfactory diagnostic performance for CP and could be used as a potential clinical diagnostic tool during colonoscopy.

]]> <![CDATA[On the open-source landscape of <i>PLOS Computational Biology</i>]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008725 <![CDATA[Understanding tree failure—A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246805 Recent research has indicated an increase in the likelihood and impact of tree failure. The potential for trees to fail relates to various biomechanical and physical factors. Strikingly, there seems to be an absence of tree risk assessment methods supported by observations, despite an increasing availability of variables and parameters measured by scientists, arborists and practitioners. Current urban tree risk assessments vary due to differences in experience, training, and personal opinions of assessors. This stresses the need for a more objective method to assess the hazardousness of urban trees. The aim of this study is to provide an overview of factors that influence tree failure including stem failure, root failure and branch failure. A systematic literature review according to the PRISMA guidelines has been performed in databases, supported by backward referencing: 161 articles were reviewed revealing 142 different factors which influenced tree failure. A meta-analysis of effect sizes and p-values was executed on those factors which were associated directly with any type of tree failure. Bayes Factor was calculated to assess the likelihood that the selected factors appear in case of tree failure. Publication bias was analysed visually by funnel plots and results by regression tests. The results provide evidence that the factors Height and Stem weight positively relate to stem failure, followed by Age, DBH, DBH squared times H, and Cubed DBH (DBH3) and Tree weight. Stem weight and Tree weight were found to relate positively to root failure. For branch failure no relating factors were found. We recommend that arborists collect further data on these factors. From this review it can further be concluded that there is no commonly shared understanding, model or function available that considers all factors which can explain the different types of tree failure. This complicates risk estimations that include the failure potential of urban trees.

]]> <![CDATA[Structural model of corporate social responsibility. An empirical study on Mexican SMEs]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246384 Companies are increasingly aware of their role with regard to social responsibility in its three pillars: economic, social and environmental, with their different stakeholders. Facing the dilemma of choosing the model of social responsibility they should adopt, taking care of their organizational culture and their employees, with a global vision that the business world requires. However, it is not an easy task for small and medium enterprises, mainly because of their economic shortcomings in human resources and knowledge of how to be a socially responsible company. But they are aware that Corporate Social Responsibility (CSR) is an opportunity for development and differentiation in the market. Therefore, the objective of this research is to build, identify and validate a model of Social Responsibility in small and medium enterprises in Guanajuato, Mexico (CSRSMEs), on a sample of 226 SMEs, using as a basis the methodology of the international standard of Ethical and Socially Responsible Management System (SGE21). A quantitative approach was used and, a descriptive analysis, exploratory factor analysis and the structural equation modeling was applied. The results determine that the most relevant variables for being socially responsible are human capital, clients, supply chain, social environment and impact on the community, and organizational governance: Legality and Management System. It is drawn from this work that the flexibility of the so-called Ethical and Socially Responsible Management System has the empirical foundations needed. That is, from the perspective of the company’s management to consider the CSRSMEs model an opportunity to adopt and evaluate the areas of social responsibility management of any business structure in the SMEs in Mexico.

]]> <![CDATA[The Abbreviated Science Anxiety Scale: Psychometric properties, gender differences and associations with test anxiety, general anxiety and science achievement]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245200 Science anxiety refers to students’ negative emotions about learning science. Across two studies, we investigated the psychometric properties of the newly developed Abbreviated Science Anxiety Scale (ASAS), which was adapted from the modified Abbreviated Math Anxiety Scale (m-AMAS) (Carey E., 2017). Using a sample of students in grades 7 to 10 (N = 710), Study 1 reported a two-factor structure of the ASAS (learning science anxiety and science evaluation anxiety) and negative associations between the ASAS factors and science achievement. Study 2 replicated this two-factor model in students in grades 11 and 12 (N = 362) and found that students in the “Arts” track were more anxious about science than those in “Sciences” track. Both studies consistently reported positive inter-correlations between the ASAS factors, with good internal reliabilities and modest meaningful associations with test anxiety and general anxiety, suggesting that science anxiety might be a distinct construct. Further, female students had higher science anxiety (especially science evaluation anxiety) than male students, even when test anxiety and general anxiety were considered in models. In summary, the ASAS is a brief, valid, and reliable instrument that can be used to guide and improve science education.

]]> <![CDATA[Advancing science or advancing careers? Researchers’ opinions on success indicators]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243664 The way in which we assess researchers has been under the radar in the past few years. Critics argue that current research assessments focus on productivity and that they increase unhealthy pressures on scientists. Yet, the precise ways in which assessments should change is still open for debate. We circulated a survey with Flemish researchers to understand how they work, and how they would rate the relevance of specific indicators used in research assessments. We found that most researchers worked far beyond their expected working schedule. We also found that, although they spent most of their time doing research, respondents wished they could dedicate more time to it and spend less time writing grants and performing other activities such as administrative duties and meetings. When looking at success indicators, we found that indicators related to openness, transparency, quality, and innovation were perceived as highly important in advancing science, but as relatively overlooked in career advancement. Conversely, indicators which denoted of prestige and competition were generally rated as important to career advancement, but irrelevant or even detrimental in advancing science. Open comments from respondents further revealed that, although indicators which indicate openness, transparency, and quality (e.g., publishing open access, publishing negative findings, sharing data, etc.) should ultimately be valued more in research assessments, the resources and support currently in place were insufficient to allow researchers to endorse such practices. In other words, current research assessments are inadequate and ignore practices which are essential in contributing to the advancement of science. Yet, before we change the way in which researchers are being assessed, supporting infrastructures must be put in place to ensure that researchers are able to commit to the activities that may benefit the advancement of science.

]]> <![CDATA[What predicts legislative success of early care and education policies?: Applications of machine learning and Natural Language Processing in a cross-state early childhood policy analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246730 Following the pioneering efforts of a federal Head Start program, U.S. state policymakers have rapidly expanded access to Early Care and Education (ECE) programs with strong bipartisan support. Within the past decade the enrollment of 4 year-olds has roughly doubled in state-funded preschool. Despite these public investments, the content and priorities of early childhood legislation–enacted and failed–have rarely been examined. This study integrates perspectives from public policy, political science, developmental science, and machine learning in examining state ECE bills in identifying key factors associated with legislative success. Drawing from the Early Care and Education Bill Tracking Database, we employed Latent Dirichlet Allocation (LDA), a statistical topic identification model, to examine 2,396 ECE bills across the 50 U.S. states during the 2015-2018. First, a six-topic solution demonstrated the strongest fit theoretically and empirically suggesting two meta policy priorities: ‘ECE finance’ and ‘ECE services’. ‘ECE finance’ comprised three dimensions: (1) Revenues, (2) Expenditures, and (3) Fiscal Governance. ‘ECE services’ also included three dimensions: (1) PreK, (2) Child Care, and (3) Health and Human Services (HHS). Further, we found that bills covering a higher proportion of HHS, Fiscal Governance, or Expenditures were more likely to pass into law relative to bills focusing largely on PreK, Child Care, and Revenues. Additionally, legislative effectiveness of the bill’s primary sponsor was a strong predictor of legislative success, and further moderated the relation between bill content and passage. Highly effective legislators who had previously passed five or more bills had an extremely high probability of introducing a legislation that successfully passed regardless of topic. Legislation with expenditures as policy priorities benefitted the most from having an effective legislator. We conclude with a discussion of the empirical findings within the broader context of early childhood policy literature and suggest implications for future research and policy.

]]> <![CDATA[Non-adherence to self-care and associated factors among diabetes adult population in Ethiopian: A systemic review with meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245862

Background

Self-care practice among people with diabetes is not well-implemented in Ethiopia. So far, in Ethiopia, several observational studies have been done on self-care practice and its determinants in people with diabetes. However, a comprehensive review that would have a lot of strong evidence for designing intervention is lacking. So, this review with a meta-analysis was conducted to bridge this gap.

Methods

A systematic review of an observational study is conducted following the PRISMA checklist. Three reviewers have been searched and extracted from the World Health Organization’s Hinari portal (SCOPUS, African Index Medicus, and African Journals Online databases), PubMed, Google Scholar and EMBASE. Articles’ quality was assessed using the Newcastle-Ottawa Scale by two independent reviewers, and only studies with low and moderate risk were included in the final analysis. The review presented the pooled proportion of non-adherence to self-care practice in people with diabetes and the odds ratios of risk factors hindering to self-care practice after checking for heterogeneity and publication bias. The review has been registered in PROSPERO with protocol number CRD 42020149478.

Results

We included 21 primary studies (with 7,134 participants) in this meta-analysis. The pooled proportion of non-adherence to self-care in the diabetes population was 49.91 (95% CI: 44.73–55.08, I2 = 89.8%). Male (Pooled Odds Ratio (POR): 1.84 95%CI; 1.04–2.64, I2 = 15.0%), having private glucometer (POR: 2.71; 95%CI: 1.46–3.95, I2 = 0.0%), short-term Diabetes Mellitus (DM) duration (POR: 3.69; 95%CI: 1.86–5.52, I2 = 0.0%), DM complication (POR: 2.22; 95%CI: 1.48–2.95, I2 = 0.0%), treatment satisfaction (POR: 1.8; 95% CI: 1.15–2.44, I2 = 0.0%), received diabetes self-management education (POR: 2.71; 95% CI: 1.46–3.95, I2 = 0.0%) and poor self-efficacy (POR: 3.09; 95% CI: 1.70–4.48, I2 = 0.0%) were statistically significant factors of non-adherence to self-care practice.

Conclusions

The overall pooled proportion of non-adherence to self-care among adult diabetes in Ethiopia was high. Further works would be needed to improve self-care practice in the diabetes population. So, factors that were identified might help to revise the plan set by the country, and further research might be required to health facility fidelity and each domain of self-care practice according to diabetes self-management guideline.

]]> <![CDATA[Conflict of interest policies at Belgian medical faculties: Cross-sectional study indicates little oversight]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245736

Background

Medical students encounter pharmaceutical promotion from the very start of their training. Medical schools have an important role to play in educating medical students regarding the interactions between healthcare professionals (HCPs) and industry and in protecting them from commercial influence and conflict of interest (COI). In 2019, medical student associations in Belgium and abroad called for more preparation in dealing with COI and for a more independent medical training. As little information is available on the situation in our country, we undertook an assessment of conflict of interest policies at Belgium’s medical schools. We relied on a methodology already used in studies from USA, Canada, Australia, France and Germany and adapted it to the Belgian context.

Methods

We identified 10 medical schools in Belgium. We searched the website of each medical school in November 2019 with standardized keywords for COI policies and learning activities on COI in the curriculum. The deans of medicine were invited to participate by sending us information that we could have overlooked during our web-based searches. We also consulted personal contacts within faculties among students and teachers. Based on a list of 15 criteria adapted from North American and French studies, we calculated a total for each faculty of medicine with a maximum score of 30 points.

Results

By December 2019, we had gathered a set of written documents for four faculties of medicine (40%) containing policies with varying degrees of precision and relevance to our survey. We found elements of the curriculum addressing the COI issue for one faculty (10%). In all cases, these policies consisted of “moderate” initiatives with little or no “restrictive” elements. Only one faculty showed interest in our study by providing us with relevant information (10%). Half of the faculty notified us of their refusal to participate in the study (50%) and the other faculties either did not respond or did not provide us with any information (40%). The maximum score obtained was 3 out of 30 points with six faculties scoring 0 (60%).

Conclusion

There is little transparency regarding interactions between medical students and pharmaceutical companies at Belgian medical faculties, which may create COI issues. Initiatives to protect students from pharmaceutical promotion and to train them to manage their future interaction with pharmaceutical companies have a limited scope and are isolated. This is inconsistent with international recommendations from Health Action International, World Health Organization or the American Medical Students’ Association. The Belgian government has legislated in favor of more transparency in the relation between HCPs and pharmaceutical industry. Indeed, it made the disclosure of benefits granted by the industry compulsory and limited their value. Our results show that there is still some way to go to ensure an independent medical training for future Belgian physicians.

]]> <![CDATA[Meta-analysis of the correlation between serum uric acid level and carotid intima-media thickness]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246416

Objective

Recently, increasing epidemiological evidence has shown that there is a correlation between serum uric acid level (SUA) and carotid intima-media thickness (CIMT). This paper explored the relationship between them through meta-analysis.

Methods

PubMed, Cochrane Library, EMBASE, Web of Science and Google Scholar were searched to obtain literature. The keywords used to retrieve the literature were carotid intima thickness, intima-media thickness, carotid atherosclerosis, carotid stenosis, carotid artery, uric acid, blood uric acid, and hyperuricaemia. The retrieval time was from the establishment of the database through July 2020. Stata15.0 and RevMan5.3 software were used for statistical analysis. The standardized mean difference (SMD) and 95% confidence interval (95% CI) were calculated by a random effect model to estimate the correlation. Publication bias was assessed using the Begg and Egger tests. The stability of these results was evaluated using sensitivity analyses.

Results

Fifteen studies were included with a total sample size of 11382, including 7597 participants in the high uric acid group and 3785 in the control group, on the basis of the inclusion and exclusion criteria. According to the evaluation of the JBI scale, the literature was of high quality. The average age ranged from 42 to 74. Meta-analysis showed that CIMT in the high uric acid group was significantly higher than that in the control group (SMD = 0.53, 95% CI: [0.38, 0.68]), and the difference was significant (z = 6.98, P < 0.00001). The heterogeneity among the 15 articles was obvious (I2 = 89%, P < 0.00001). Subgroup analysis by disease status illustrated a positive relationship between SUA and CIMT in healthy people and people with diseases. SUA was shown to be positively correlated with CIMT in people aged 45–60 years and ≥60 years by subgroup analysis by age. SUA was also found to be positively correlated with CIMT in a population with BMI>24 kg/m2 by subgroup analysis by BMI. In addition, subgroup analysis of other risk factors for CIMT, including TC, SBP, DBP, triglycerides, and LDL-C, all showed a positive correlation between SUA and CIMT.

Conclusions

There is a significant correlation between serum uric acid level and carotid intima-media thickness, and a high concentration of serum uric acid is related to carotid artery intima-media thickness.

]]> <![CDATA[Comparative efficacy of different ultrasound-guided ablation for the treatment of benign thyroid nodules: Systematic review and network meta-analysis of randomized controlled trials]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243864

Background

Percutaneous ablation is currently deemed an additionally treatment option for benign thyroid nodules in the world, but possibly different effect among the ablation modalities is not clear. So we aim to evaluate the efficacy and complications of thermal/chemical ablation by network meta-analysis.

Materials and methods

In the network meta-analysis, PubMed, EMBASE and the Cochrane Library databases were searched from 1980 to 2020. Studies of adults with thyroid benign nodules under percutaneous ablation therapy were included. Percentage mean volume change, symptom score change, cosmetic score change and complications were evaluated by network meta-analysis.

Results

In the network meta-analysis, Radiofrequency Ablation(RFA) with 2 treatment sessions group was associated with the highest reduction for the mean volume change during 6-month follow-up (MD = 79.09 and 95% CrI:48.23–89.94). There is no significant difference in the incidence of complications. Subgroup analysis showed that 2 sessions of Radiofrequency Ablation (RFA) ranks the highest probability (surface under the cumulative ranking curve (SUCRA) values 77.9) of being the most efficacious treatment for solid or predominantly solid benign nodules. Ethanol ablation (EA) ranked first (SUCRA value 81.1) in the treatment for cyst or predominantly cyst benign nodules.

Conclusion

RFA appears to be superior to other US-guided percutaneous ablation in reducing benign thyroid nodule volume during short- and long-term follow-up. In the subgroup analysis, RFA with 2 treatment sessions showed the most significant effectiveness for solid benign thyroid nodules and EA showed more effectiveness to decrease the volume of cyst benign thyroid nodules.

]]> <![CDATA[Understanding the dynamics of obesity prevention policy decision-making using a systems perspective: A case study of Healthy Together Victoria]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245535

Introduction

Despite global recommendations for governments to implement a comprehensive suite of policies to address obesity, policy adoption has been deficient globally. This paper utilised political science theory and systems thinking methods to examine the dynamics underlying decisions regarding obesity prevention policy adoption within the context of the Australian state government initiative, Healthy Together Victoria (HTV) (2011–2016). The aim was to understand key influences on policy processes, and to identify potential opportunities to increase the adoption of recommended policies.

Methods

Data describing government processes in relation to the adoption of six policy interventions considered as part of HTV were collected using interviews (n = 57), document analyses (n = 568) and field note observations. The data were analysed using multiple political science theories. A systematic method was then used to develop a Causal Loop Diagram (CLD) for each policy intervention. A simplified meta-CLD was generated from synthesis of common elements across each of the six policy interventions.

Results

The dynamics of policy change could be explained using a series of feedback loops. Five interconnected balancing loops served to reduce the propensity for policy change. These pertained to an organisational norm of risk aversion, and the complexity resulting from a whole-of-government policy approach and in-depth stakeholder consultation. However, seven virtuous reinforcing loops helped overcome policy resistance through policy actor capabilities that were improved over time as policy actors gained experience in advocating for change.

Conclusion

Policy processes for obesity prevention are complex and resistant to change. In order to increase adoption of recommended policies, several capabilities of policy actors, including policy skills, political astuteness, negotiation skills and consensus building, should be fostered and strengthened. Strategies to facilitate effective and broad-based consultation, both across and external to government, need to be implemented in ways that do not result in substantial delays in the policy process.

]]> <![CDATA[Pay for performance, satisfaction and retention in longitudinal crowdsourced research]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245460 In the social and cognitive sciences, crowdsourcing provides up to half of all research participants. Despite this popularity, researchers typically do not conceptualize participants accurately, as gig-economy worker-participants. Applying theories of employee motivation and the psychological contract between employees and employers, we hypothesized that pay and pay raises would drive worker-participant satisfaction, performance, and retention in a longitudinal study. In an experiment hiring 359 Amazon Mechanical Turk Workers, we found that initial pay, relative increase of pay over time, and overall pay did not have substantial influence on subsequent performance. However, pay significantly predicted participants' perceived choice, justice perceptions, and attrition. Given this, we conclude that worker-participants are particularly vulnerable to exploitation, having relatively low power to negotiate pay. Results of this study suggest that researchers wishing to crowdsource research participants using MTurk might not face practical dangers such as decreased performance as a result of lower pay, but they must recognize an ethical obligation to treat Workers fairly.

]]> <![CDATA[Ethics of emerging infectious disease outbreak responses: Using Ebola virus disease as a case study of limited resource allocation]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246320 Emerging infectious diseases such as Ebola Virus Disease (EVD), Nipah Virus Encephalitis and Lassa fever pose significant epidemic threats. Responses to emerging infectious disease outbreaks frequently occur in resource-constrained regions and under high pressure to quickly contain the outbreak prior to potential spread. As seen in the 2020 EVD outbreaks in the Democratic Republic of Congo and the current COVID-19 pandemic, there is a continued need to evaluate and address the ethical challenges that arise in the high stakes environment of an emerging infectious disease outbreak response. The research presented here provides analysis of the ethical challenges with regard to allocation of limited resources, particularly experimental therapeutics, using the 2013–2016 EVD outbreak in West Africa as a case study. In-depth semi-structured interviews were conducted with senior healthcare personnel (n = 16) from international humanitarian aid organizations intimately engaged in the 2013–2016 EVD outbreak response in West Africa. Interviews were recorded in private setting, transcribed, and iteratively coded using grounded theory methodology. A majority of respondents indicated a clear propensity to adopt an ethical framework of guiding principles for international responses to emerging infectious disease outbreaks. Respondents agreed that prioritization of frontline workers’ access to experimental therapeutics was warranted based on a principle of reciprocity. There was widespread acceptance of adaptive trial designs and greater trial transparency in providing access to experimental therapeutics. Many respondents also emphasized the importance of community engagement in limited resource allocation scheme design and culturally appropriate informed consent procedures. The study results inform a potential ethical framework of guiding principles based on the interview participants’ insights to be adopted by international response organizations and their healthcare workers in the face of allocating limited resources such as experimental therapeutics in future emerging infectious disease outbreaks to ease the moral burden of individual healthcare providers.

]]> <![CDATA[Factors associated with hypertension in Pakistan: A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246085

Background

High blood pressure is an important public health concern and the leading risk factor for global mortality and morbidity. To assess the implications of this condition, we aimed to review the existing literature and study the factors that are significantly associated with hypertension in the Pakistani population.

Methods

We conducted several electronic searches in PubMed, ISI Web of Science, PsycINFO, EMBASE, Scopus, Elsevier, and manually searched the citations of published articles on hypertension from May 2019 to August 2019. We included all studies that examined factors associated with hypertension regardless of the study design. To assess the quality of the research, we used the Newcastle-Ottawa Quality Assessment Scale. We also conducted meta-analyses using the DerSimonian & Laird random-effects model to collate results from at least three studies.

Results

We included 30 cross-sectional and 7 case-control studies (99,391 participants country-wide) in this review and found 13 (35.1%) to be high-quality studies. We identified 5 socio-demographic, 3 lifestyle, 3 health-related, and 4 psychological variables that were significantly associated with hypertension. Adults aged between 30–60 years who were married, living in urban areas with high incomes, used tobacco, had a family history of hypertension, and had comorbidities (overweight, obesity, diabetes, anxiety, stress, and anger management issues) were positively associated with hypertension. On the other hand, individuals having high education levels, normal physical activity, and unrestricted salt in their diet were negatively associated with hypertension.

Conclusion

We found several socio-demographic, lifestyle, health-related, and psychological factors that were significantly (positively and negatively) associated with hypertension. Our findings may help physicians and public health workers to identify high-risk groups and recommend appropriate prevention strategies. Further research is warranted to investigate these factors rigorously and collate global evidence on the same.

]]> <![CDATA[Impact of work-family balance results on employee work engagement within the organization: The case of Slovenia]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245078

Background and purpose

Organizations strive to increase the work engagement of their employees, as engaged employees are more productive employees, but often neglect the significant effects of work-family balance on work engagement. Numerous studies confirm the importance of work-family balance and work engagement, but there is lack of research that explores the relationship between the concepts. Our research fills a research gap in investigating the impact of work-family balance on work engagement, both directly and through individual perceptions of organizational support for work-family balance. The main aim of our research is to empirically test the relationships between the policies and practices of organizations regarding work-family balance, work-life balance and work engagement.

Methods

Using validated questionnaires, we collected data on organizational support for work-family balance (family-friendly policies and practices, support by leader, support by co-workers, working hours and complexity of work), work-family balance and work engagement. The quantitative data for our analysis was collected through a survey of 343 online participants who were employees in various positions in companies in Slovenia.

The results

Our results show that the organization's work-family balance policies and practices, such as support by leader, co-workers, and family-friendly policies and practices, have a positive impact on the individual's work-family balance, that work-family balance leads to an increase in work engagement, and that the individual's perception of the organization's work-family balance support leads to an increase in work engagement.

Conclusion

Knowledge of important work-family balance implications with an understanding of organizational support for work-family balance and the relationships between the constructs of work-family balance and work engagement can be beneficial to business leaders. This understanding can help them to strengthen employee work engagement through family-friendly policies and practices, and thereby contributing to the area of employee behavior and improving employee productivity.

]]> <![CDATA[Sustainability planning in the US response to the opioid crisis: An examination using expert and text mining approaches]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245920 Between January 2016 and June 2020, the Substance Abuse and Mental Health Services Administration rapidly distributed $7.5 billion in response to the U.S. opioid crisis. These funds are designed to increase access to medications for addiction treatment, reduce unmet treatment need, reduce overdose death rates, and provide and sustain effective prevention, treatment and recovery activities. It is unclear whether or not the services developed using these funds will be sustained beyond the start-up period. Based on 34 (64%) State Opioid Response (SOR) applications, we assessed the states’ sustainability plans focusing on potential funding sources, policies, and quality monitoring. We found variable commitment to sustainability across response plans with less than half the states adequately describing sustainability plans. States with higher proportions of opioid prescribing, opioid misuse, and poverty had somewhat higher scores on sustainment. A text mining/machine learning approach automatically rated sustainability in SOR applications with an 82% accuracy compared to human ratings. Because life saving evidence-based programs and services may be lost, intentional commitment to sustainment beyond the bolus of start-up funding is essential.

]]> <![CDATA[Pentraxin 3 is more accurate than C-reactive protein for Takayasu arteritis activity assessment: A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245612

Aims

Whether the circulating levels of pentraxin 3 (PTX3), an acute phase reactant (APR), are higher in active Takayasu arteritis (TAK), and if so, whether PTX3 is more accurate than C-reactive protein (CRP) in TAK activity assessment has been investigated in this study.

Study design

Research works such as PubMed, Embase, ScienceDirect, Cochrane Library, and two Chinese literature databases (CNKI and WanFang) were searched for studies conducted till August 30th, 2019. Two investigators searched the studies independently, who evaluated the quality of the study using the Newcastle–Ottawa scale (NOS) and extracted data. Pooled standard mean difference (SMD) and diagnostic indexes, with a 95% confidence interval (CI), were calculated using a random-effect model.

Results

Totally, 8 studies involving 473 TAK (208 active and 265 inactive TAK) patients and 252 healthy controls were eventually included in the meta-analysis. PTX3 level in the blood in active TAK patients were found to be higher than that in dormant TAK with pooled SMD of 0.761 (95% CI = 0.38–1.14, p<0.0001; I2 = 68%, p of Q test = 0.003). And there was no publication bias. Among the 8 studies, 5 studies identified active TAK with both PTX3 and CRP. The pooled sensitivity, specificity, and AUC values of PTX3 in active TAK diagnosis were higher than those of CRP (0.78 [95% CI = 0.65–0.87] vs. 0.66 [95% CI = 0.53–0.77], p = 0.012; 0.85 [95% CI = 0.77–0.90] vs. 0.77 [95% CI = 0.56–0.90], p = 0.033; 0.88 [95% CI = 0.85–0.90] vs. 0.75 [95% CI = 0.71–0.79], p < 0.0001). It showed potential publication bias using Egger’s test (p of PTX3 = 0.031 and p of CRP = 0.047).

Conclusions

PTX3 might be better than CRP in the assessment of TAK activity. Yet, it should be cautious before clinical use for moderate heterogeneity and potential publication bias of the meta-analysis.

]]> <![CDATA[A breeding pool of ideas: Analyzing interdisciplinary collaborations at the Complex Systems Summer School]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246260 Interdisciplinary research is essential for the study of complex systems, and so there is a growing need to understand the factors that facilitate collaboration across diverse fields of inquiry. In this exploratory study, we examine the composition of self-organized project groups and the structure of collaboration networks at the Santa Fe Institute’s Complex Systems Summer School. Using data from all iterations of the summer school from 2005 to 2019, comprising 823 participants and 322 projects, we investigate the factors that contribute to group composition. We first test for homophily with respect to individual-level attributes, finding that group composition is largely consistent with random mixing based on gender, career position, institutional prestige, and country of study. However, we find some evidence of homophilic preference in group composition based on disciplinary background. We then conduct analyses at the level of group projects, finding that project topics from the Social and Behavioral Sciences are over-represented. This could be due to a higher level of baseline interest in, or knowledge of, social and behavioral sciences, or the common application of methods from the natural sciences to problems in the social sciences. Consequently, future research should explore this discrepancy further and examine whether it can be mitigated through policies aimed at making topics in other disciplines more accessible or appealing for collaboration.

]]> <![CDATA[DEER-PREdict: Software for efficient calculation of spin-labeling EPR and NMR data from conformational ensembles]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008551 Owing to their plasticity, intrinsically disordered and multidomain proteins require descriptions based on multiple conformations, thus calling for techniques and analysis tools that are capable of dealing with conformational ensembles rather than a single protein structure. Here, we introduce DEER-PREdict, a software program to predict Double Electron-Electron Resonance distance distributions as well as Paramagnetic Relaxation Enhancement rates from ensembles of protein conformations. DEER-PREdict uses an established rotamer library approach to describe the paramagnetic probes which are bound covalently to the protein.DEER-PREdict has been designed to operate efficiently on large conformational ensembles, such as those generated by molecular dynamics simulation, to facilitate the validation or refinement of molecular models as well as the interpretation of experimental data. The performance and accuracy of the software is demonstrated with experimentally characterized protein systems: HIV-1 protease, T4 Lysozyme and Acyl-CoA-binding protein. DEER-PREdict is open source (GPLv3) and available at github.com/KULL-Centre/DEERpredict and as a Python PyPI package pypi.org/project/DEERPREdict.

The accurate description of the structure of a protein is pivotal to fully understand its biological function. A large fraction of eukaryotic proteins is intrinsically disordered or consists of multiple folded domains connected by disordered regions. The structure of these proteins is highly flexible and can only be described by large ensembles of conformations. The characterization of these ensembles can be achieved by integrating in silico molecular modelling and simulations with experiments. Here, we present DEER-PREdict, an open-source software program to conveniently and efficiently calculate the observables of two biophysical methods, namely double electron-electron resonance (DEER) and paramagnetic relaxation enhancement (PRE) nuclear magnetic resonance. Both techniques provide distance information for highly dynamic systems and involve labelling proteins at one or more sites with flexible probe molecules. The DEER-PREdict package combines previously developed and validated methods for placing multiple conformations of a nitroxide molecule at the protein sites with the rapid calculation of DEER and PRE observables from large ensembles of protein structures. Through examples, we illustrate the use of DEER-PREdict as a tool for interpreting experimental results, validating molecular models of flexible proteins as well as designing experiments.

]]> <![CDATA[Short birth spacing and its association with maternal educational status, contraceptive use, and duration of breastfeeding in Ethiopia. A systematic review and meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246348

Background

Closely spaced birth increases the risk of adverse maternal and child health outcomes. In Ethiopia, the prevalence of short birth spacing was highly variable across studies. Besides, contraceptive use, educational status, and duration of breastfeeding were frequently mentioned factors affecting short birth spacing. Therefore, this meta-analysis aimed to estimate the pooled prevalence of short birth spacing and its association with contraceptive use, educational status, and duration of breastfeeding among reproductive-age women in Ethiopia.

Methods

International databases: Google Scholar, PubMed, CINAHL, Cochrane library, HINARI, and Global Health were searched systematically to identify articles reporting the prevalence of short birth spacing and its association with contraceptive use, educational status, and duration of breastfeeding among reproductive-age women in Ethiopia. The data were analyzed by STATA/SE version-14 statistical software. The random-effect model was used to estimate the pooled prevalence of short birth spacing and the log odds ratio was used to determine the association. Moreover, egger’s test and I-squared statistics were used to assess publication bias and heterogeneity respectively.

Results

After reviewing 511 research articles, a total of nine articles with 5,682 study participants were included in this meta-analysis. The pooled prevalence of short birth spacing in Ethiopia was 46.9% [95% CI: (34.7, 59.1)]. Significant heterogeneity was observed between studies (I2 = 98.4, p <0.001). Not using contraceptives [OR = 3.87, 95% CI: (2.29, 6.53)] and duration of breastfeeding < 24 months [OR = 16.9, 95%CI: (2.69, 106.47)] had a significant association with short birth spacing.

Conclusions

Although a minimum inter-pregnancy interval of two years was recommended by the World Health Organization (WHO), significant numbers of women still practiced short birth spacing in Ethiopia. Duration of breastfeeding and non-use of contraceptives were factors significantly associated with short birth spacing. So, efforts should be made to improve breastfeeding practice and contraceptive utilization among women in Ethiopia.

]]> <![CDATA[A systematic review and meta-analysis of victimisation and mental health prevalence among LGBTQ+ young people with experiences of self-harm and suicide]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245268

Background

LGBTQ+ youth have higher rates of self-harm and suicide than cisgender, heterosexual peers. Less is known about prevalence of risks within these populations.

Objectives

The first systematic review and meta-analysis to investigate the prevalence of risks among young people throughout the LGBTQ+ umbrella with experiences across the dimension of self-harm, suicidal ideation and suicide behaviour; and how they may differ between LGBTQ+ umbrella groups.

Data sources

MEDLINE, Scopus, EMBASE, PsycINFO, and Web of Science searches were run to identify quantitative research papers (database inception to 31st January, 2020).

Study eligibility criteria

Articles included were empirical quantitative studies, which examined risks associated with self-harm, suicidal ideation or suicidal behaviour in LGBTQ+ young people (12–25 years).

Synthesis methods

2457 articles were identified for screening which was completed by two independent reviewers. 104 studies met inclusion criteria of which 40 had data which could be meta-analysed in a meaningful way. This analysis represents victimisation and mental health difficulties as risks among LGBTQ+ youth with self-harm and suicide experiences. Random-effects modelling was used for the main analyses with planned subgroup analyses.

Results

Victimisation and mental health were key risk factors across the dimension self-harm and suicide identified through all analyses. A pooled prevalence of 0.36 was indicated for victimisation and 0.39 for mental health difficulties within LGBTQ+ young people with experiences of self-harm or suicide. Odds ratios were calculated which demonstrated particularly high levels of victimisation (3.74) and mental health difficulties (2.67) when compared to cisgender, heterosexual counterparts who also had these experiences.

Conclusions

Victimisation and mental health difficulties are highly prevalent among LGBTQ+ youth with experiences of self-harm and suicide. Due to inconsistency of reporting, further risk synthesis is limited. Given the global inclusion of studies, these results can be considered across countries and inform policy and suicide prevention initiatives.

PROSPERO registration number

CRD42019130037.

]]> <![CDATA[Understanding the educational needs of parenting athletes involved in sport and education: The parents’ view]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243354

Background

Despite the fact that an educational programme for parents of youth tennis players has been launched recently, there is a need to empower parents of athletes in sustaining the combination of education and sport careers (i.e., dual career) of their talented and elite athletes across sports. The aim of this study was to explore the parents’ view of their role as dual career supporters and their need for educational support in this area.

Methods

In total, 115 parents (F = 49, M = 66) of athletes (14–23 yrs) engaged in full time academic education (high school/university) and competitive (e.g., National, International) sports (individual = 12, team = 9) in five European Member States (e.g., France, Ireland, Italy, Portugal, Slovenia) took part in national workshops. The workshops involved discussing five themes and agreeing statements relevant to assist parents supporting their children as dual career athletes: 1) the athletes’ needs; 2) the sports environment; 3) the academic environment; 4) dual career-related policies and services; 5) The educational methods for parenting dual career athletes.

Results

A final list of 80 agreed statements were identified: 25 statements mainly related to the sports entourage; 23 to information on dual career-related policies and services; 22 to the athletes’ needs; 17 to the academic entourage, and 8 to the relevant educational resources to parenting dual career athletes, respectively.

Conclusions

This cross-national qualitative research synthesized the parents’ perspectives about their needs and the most relevant content of an educational programme for parenting dual career athletes. The findings of this research will help influence the formulation of effective education strategies on parenting dual career athletes to ensure an optimal supportive environment for the successful combination of high-level sport and education careers.

]]> <![CDATA[Hair chemicals may increase breast cancer risk: A meta-analysis of 210319 subjects from 14 studies]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243792

Background

The association between personal hair dye use and breast cancer risk is currently debated. The aim of this work is to investigate the association between the use of hair care products and breast cancer risk in women.

Methods

Based on the PRISMA-IPD statement, the PubMed, Embase, Cochrane Library, Web of Science, OVID and Scopus databases were used to identify eligible studies published from inception to 22 April 2020. A pooled odds ratio (OR) with a 95% confidential interval (CI) was calculated to assess this correlation via fixed- or random-effect Mantel-Haenszel models using a heterogeneity Chi2 test with a significance level of p<0.1. All statistical tests were performed using StataSE software (version 12.0).

Results

The analyzed data comprised 14 eligible studies with 210319 unique subjects. The pooled results suggested that there was a significant association between the use of hair dyes and breast cancer occurrence (pooled OR = 1.07; 95% CI, 1.01–1.13). Regarding the individual analysis regarding the different types of hair chemicals, permanent hair dye users (pooled OR = 1.08; 95% CI, 1.03–1.14) and rinse users (pooled OR = 1.17; 95% CI, 1.02–1.35) were both found to have a significantly elevated breast cancer risk compared to natural hair subjects, whereas there was an insignificant relationship between the use of semipermanent hair dyes (pooled OR = 1.09; 95% CI, 0.92–1.28) and straighteners (pooled OR = 1.04; 95% CI, 0.96–1.14) and breast cancer risk. No impact on the overall correlation between hair dyes and breast cancer risk due to race (White vs non-White) (pooled OR = 1.05; 95% CI, 0.86–1.29), timing of use (<10 years vs ≥10 years) (pooled OR = 0.96; 95% CI, 0.85–1.08) or dye color (Darker than natural hair vs Lighter than natural hair) (pooled OR = 0.91; 95% CI, 0.62–1.32) was found.

Conclusions

Chemicals in hair dyes may play a role in breast carcinogenesis and increase breast cancer risk.

]]> <![CDATA[Multithreaded variant calling in elPrep 5]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244471 We present elPrep 5, which updates the elPrep framework for processing sequencing alignment/map files with variant calling. elPrep 5 can now execute the full pipeline described by the GATK Best Practices for variant calling, which consists of PCR and optical duplicate marking, sorting by coordinate order, base quality score recalibration, and variant calling using the haplotype caller algorithm. elPrep 5 produces identical BAM and VCF output as GATK4 while significantly reducing the runtime by parallelizing and merging the execution of the pipeline steps. Our benchmarks show that elPrep 5 speeds up the runtime of the variant calling pipeline by a factor 8-16x on both whole-exome and whole-genome data while using the same hardware resources as GATK4. This makes elPrep 5 a suitable drop-in replacement for GATK4 when faster execution times are needed.

]]> <![CDATA[Water affordability and human right to water implications in California]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245237 Water affordability is central to water access but remains a challenge to measure. California enshrined the human right to safe and affordable water in 2012 but the question remains: how should water affordability be measured across the state? This paper contributes to this question in three steps. First, we identify key dimensions of water affordability measures (including scale, volume of water needed to meet ‘basic’ needs, and affordability criteria) and a cross-cutting theme (social equity). Second, using these dimensions, we develop three affordability ratios measured at the water system scale for households with median, poverty level, and deep poverty (i.e., half the poverty level) incomes and estimate the corresponding percentage of households at these income levels. Using multiple measures conveys a fuller picture of affordability given the known limitations of specific affordability measures. Third, we analyze our results disaggregated by a key characteristic of water system vulnerability–water system size. We find that water is relatively affordable for median income households. However, we identify high unaffordability for households in poverty in a large fraction of water systems. We identify several scenarios with different policy implications for the human right to water, such as very small systems with high water bills and low-income households within large water systems. We also characterize how data gaps complicate theoretical ideals and present barriers in human right to water monitoring efforts. This paper presents a systematic approach to measuring affordability and represents the first statewide assessment of water affordability within California’s community water systems.

]]> <![CDATA[Performance measures of racially underrepresented Ph.D. students in biomedical sciences: The UAMS IMSD Program Outcomes]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0246683 The purpose of this study was to identify performance measures of racially underrepresented minority (RUM) Ph.D. trainees who needed additional training initiatives to assist with completing the UAMS biomedical science degree. A sample of 37 trainees in the 10-year NIH-NIGMS funded Initiative for Maximizing Student Development (IMSD) program at the University of Arkansas for Medical Sciences (UAMS) were examined. Descriptive statistics and correlations examined process measures (GRE scores, GPAs, etc.) and outcome measures (time-to-degree, publications, post-doctoral fellowship, etc.) While differences were found, there were no statistically significant differences between how these two groups (Historically Black Colleges and Universities (HBCUs) and Predominately White Institutions (PWIs)) of students performed over time as Ph.D. students. Graduates who scored lower on the verbal section of the GRE also had a higher final graduate school grade point average in graduates who received their undergraduate training from HBCUs. Of the graduates who received their undergraduate training from PWIs, graduates who scored lower on the quantitative section of the GRE had higher numbers of publications. These findings stimulate the need to 1) reduce reliance on the use of the GRE in admission committee decisions, 2) identify psychometrically valid indicators that tailored to assess outcome variables that are relevant to the careers of biomedical scientists, and 3) ensure the effective use of the tools in making admission decisions.

]]> <![CDATA[School policies and practices associated with Thai children’s overall and domain specific physical activity]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245906 School has a significant role in providing opportunities for children to engage in physical activity (PA) through policies and practices. This study aimed to identify the prevalence of school policies and practices related to physical activity (PA) and their association with Thai students’ overall and domain specific PA. This cross-sectional analysis included 5,830 students aged 6–17 years from 136 schools recruited though a multi-stage stratified cluster sampling across Thailand. Student’s PA data were assessed using a student survey and school data were collected by a principal survey. Associations between students’ PA and school variables were examined using logistic regressions. Despite a high prevalence of Thai schools reporting many policies and practices promoting PA in different areas, students reported low levels of PA. None of the school PA policies and practices was associated with students’ overall and domain specific activities, with active transport as the one exception. When schools had an active transport policy, students were 40% (OR = 1.40, p = 0.01) more likely to travel actively to/from school. The identified positive relationship between school active transport policy and students’ active travel behavior suggests a potential wider adoption of the policy promoting school active transport aiming to increase student’s PA levels among all Thai schools. Intervention studies are necessary to confirm this finding. Our study also reflected that, for greater levels of children’s school-based PA, strategies to translate the existing school PA policies into effective implementation should be an emphasis for Thai schools.

]]> <![CDATA[Exploring the participation of young citizen scientists in scientific research: The case of iNaturalist]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245682 Online citizen science projects have broadened options for accessing science and enabled different forms of participation in scientific research for adult and young volunteers. Yet, little is known regarding participation patterns among youth participants. Quantitative approaches were used to investigate the contribution of 183 young volunteers to citizen science on the iNaturalist platform and the participation behaviour that relates to their contribution. The participants accessed and used iNaturalist as part of one-day field-based events (bioblitzes) facilitated by museums. Compared to the observation behaviour of all iNaturalist users, as documented on the platform, the young volunteers observe fewer plants and birds, and more molluscs, arachnids and insects. The average daily contributions of young volunteers were found to be positively associated with a large proportion of active days on iNaturalist and a systematic contribution behaviour, yet negatively related to a long duration on the platform. This study enhances our understanding of young volunteers’ contributions to citizen science and provides insights for research on participation in online citizen science. Our findings have implications on how museums design the field-based events to encourage follow-up systematic participation and maintain active contribution.

]]> <![CDATA[Ten simple rules for tackling your first mathematical models: A guide for graduate students by graduate students]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008539 <![CDATA[Next of kin participation in the care of older persons in nursing homes: A pre–post non-randomised educational evaluation, using within-group and individual person-level comparisons]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244600

Background

Next of kin participation in care is a cornerstone of palliative care and is thus important in nursing homes, and outcomes following interventions need to be evaluated using robust methods.

Objective

To use within-group and within-individual analytical approaches to evaluate the participation of next of kin in care following an intervention and to compare the outcome between the intervention and control groups.

Methods

A pre–post intervention/control group study design was used. The educational intervention, directed towards staff members, focused on palliative care. The Next of Kin Participation in Care scale comprises the Communication and Trust subscale and the Collaboration in Care subscale, with nine items each. In total, 203 persons (intervention group: n = 95; control group: n = 108) were included. Three different analytical approaches were used: 1) traditional within-group comparison of raw ordinal scores and linearly transformed interval scores; 2) modern within-individual (person-level) interval score comparisons; 3) comparisons between the intervention group and control group based on individual person-level outcomes.

Results

Within-group comparisons of change revealed no change in any of the groups, whether based on raw or transformed scores. Despite this, significant improvements at the individual level were found in 32.9% of the intervention group and 11.6% of the control group for the total scale (p = 0.0024), in 25% of the intervention group and 10.5% of the control group for the Communication and Trust subscale (p = 0.0018), and in 31.2% of the intervention group and 10.5% of the control group for the Collaboration in Care subscale (p = 0.0016). However, a significant worsening at the individual level in Collaboration in Care was found in 35.1% of the intervention group but only among 8.4% of the control group (p < 0.0005).

Conclusion

The intervention seems to have a positive impact on next of kin participation in care in nursing homes, especially for communication and trust. However, some next of kin reported decreased participation in care after the intervention. Modern individual person-level approaches for the analysis of intervention outcomes revealed individual significant changes beyond traditional group-level comparisons that would otherwise be hidden. The findings are relevant for future outcome studies and may also necessitate a re-evaluation of previous studies that have not used individual person-level comparisons.

Trial registration

This study is part of the intervention project registered under Clinical Trials Registration NCT02708498.

]]> <![CDATA[Policymaking through a knowledge lens: Using the <i>embodied-enacted-inscribed</i> knowledge framework to illuminate the transfer of knowledge in a mental health policy consultation process – A South African case study]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244940

Background

Marrying principles of evidence-based policymaking, with its focus on what works, with principles of consultative policymaking, with its focus on what works for whom, means finding ways to integrate multiple knowledge inputs into policy decisions. Viewed through the lens of the embodied-enacted-inscribed knowledge framework, policy consultation is a site of knowledge enactment, where the embodied knowledge enacted by individuals engages with the inscribed knowledge contained in policy documents, creating new forms of embodied and inscribed knowledge that move beyond these spaces.

Aim

Using this knowledge framework, this study aimed to trace the movement of knowledge inputs through South Africa’s mental health policy consultation summit.

Methods

Breakaway group session transcripts from the national consultation summit were thematically analysed to identify the types of knowledge that participants explicitly drew on (experiential or evidence-based) during discussions and how these knowledge inputs were used, responded to, and captured.

Findings

Findings suggest that there was little explicit reference to either evidence-based or experiential knowledge in most of the talk. While slightly more evidence-based than experiential knowledge claims were made, this did not render these claims any more likely to be responded to or engaged with in group discussions, or to be inscribed in group recommendations.

Discussion

The importance of designing participatory processes that enable optimal use of knowledge inputs in these enacted spaces is discussed.

Conclusion

Attending to the specific ways in which knowledge is transformed and moved through a policy consultation process has the potential to enhance the value that consultation offers policymakers.

]]> <![CDATA[Does time management work? A meta-analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0245066 Does time management work? We conducted a meta-analysis to assess the impact of time management on performance and well-being. Results show that time management is moderately related to job performance, academic achievement, and wellbeing. Time management also shows a moderate, negative relationship with distress. Interestingly, individual differences and contextual factors have a much weaker association with time management, with the notable exception of conscientiousness. The extremely weak correlation with gender was unexpected: women seem to manage time better than men, but the difference is very slight. Further, we found that the link between time management and job performance seems to increase over the years: time management is more likely to get people a positive performance review at work today than in the early 1990s. The link between time management and gender, too, seems to intensify: women’s time management scores have been on the rise for the past few decades. We also note that time management seems to enhance wellbeing—in particular, life satisfaction—to a greater extent than it does performance. This challenges the common perception that time management first and foremost enhances work performance, and that wellbeing is simply a byproduct.

]]> <![CDATA[80 questions for UK biological security]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0241190 Multiple national and international trends and drivers are radically changing what biological security means for the United Kingdom (UK). New technologies present novel opportunities and challenges, and globalisation has created new pathways and increased the speed, volume and routes by which organisms can spread. The UK Biological Security Strategy (2018) acknowledges the importance of research on biological security in the UK. Given the breadth of potential research, a targeted agenda identifying the questions most critical to effective and coordinated progress in different disciplines of biological security is required. We used expert elicitation to generate 80 policy-relevant research questions considered by participants to have the greatest impact on UK biological security. Drawing on a collaboratively-developed set of 450 questions, proposed by 41 experts from academia, industry and the UK government (consulting 168 additional experts) we subdivided the final 80 questions into six categories: bioengineering; communication and behaviour; disease threats (including pandemics); governance and policy; invasive alien species; and securing biological materials and securing against misuse. Initially, the questions were ranked through a voting process and then reduced and refined to 80 during a one-day workshop with 35 participants from a variety of disciplines. Consistently emerging themes included: the nature of current and potential biological security threats, the efficacy of existing management actions, and the most appropriate future options. The resulting questions offer a research agenda for biological security in the UK that can assist the targeting of research resources and inform the implementation of the UK Biological Security Strategy. These questions include research that could aid with the mitigation of Covid-19, and preparation for the next pandemic. We hope that our structured and rigorous approach to creating a biological security research agenda will be replicated in other countries and regions. The world, not just the UK, is in need of a thoughtful approach to directing biological security research to tackle the emerging issues.

]]> <![CDATA[Can open data increase younger generations’ trust in democratic institutions? A study in the European Union]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244994 Scholars and policy makers are giving increasing attention to how young people are involved in politics and their confidence in the current democratic system. In a context of a global trust crisis in the European Union, this paper examines if open government data, a promising governance strategy, may help to boost Millennials’ and Generation Z trust in public institutions and satisfaction with public outcomes. First, results from our preliminary analysis challenge some popular beliefs by revealing that younger generations tend to trust in their institutions notably more than the rest of the European citizens. In addition, our findings show that open government data is a trust-enabler for Millennials and Generation Z, not only through a direct link between both, but also thanks to the mediator role of citizens’ satisfaction. Accordingly, public officers are encouraged to spread the implementation of open data strategies as a way to improve younger generations’ attachment to democratic institutions.

]]> <![CDATA[IOCBIO Kinetics: An open-source software solution for analysis of data traces]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008475 Biological measurements frequently involve measuring parameters as a function of time, space, or frequency. Later, during the analysis phase of the study, the researcher splits the recorded data trace into smaller sections, analyzes each section separately by finding a mean or fitting against a specified function, and uses the analysis results in the study. Here, we present the software that allows to analyze these data traces in a manner that ensures repeatability of the analysis and simplifies the application of FAIR (findability, accessibility, interoperability, and reusability) principles in such studies. At the same time, it simplifies the routine data analysis pipeline and gives access to a fast overview of the analysis results. For that, the software supports reading the raw data, processing the data as specified in the protocol, and storing all intermediate results in the laboratory database. The software can be extended by study- or hardware-specific modules to provide the required data import and analysis facilities. To simplify the development of the data entry web interfaces, that can be used to enter data describing the experiments, we released a web framework with an example implementation of such a site. The software is covered by open-source license and is available through several online channels.

In biological and other types of experiments, we frequently record changes of some parameters in time or space. It is common to analyze the data by splitting the recording into smaller sections and relating it to some changes induced by the researchers. The steps involved in the analysis are: splitting of the data, fitting them to some function, relating the fit result to the change in the environment, and normalization. These steps are frequently done through several software packages, spreedsheets, and manual copy and paste between the programs. The software presented in this work allows to make all these analysis steps in one database in a manner that is easy, can be reproduced by others, and clearly tracks the history of all the analysis steps. In addition, it allows to link the experimental data with the description of the experiment, making it simple to perform tasks such as normalization of the recorded values, relating experimental recordings to the sample or animal, as well as extracting data from the laboratory database for publishing. The software is written to be easily extendable by user-defined modules to fit the analysis pipelines and is expected to improve the data analysis practices in research.

]]> <![CDATA[Predicting the current and future distribution of the western black-legged tick, <i>Ixodes pacificus</i>, across the Western US using citizen science collections]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244754 In the twenty-first century, ticks and tick-borne diseases have expanded their ranges and impact across the US. With this spread, it has become vital to monitor vector and disease distributions, as these shifts have public health implications. Typically, tick-borne disease surveillance (e.g., Lyme disease) is passive and relies on case reports, while disease risk is calculated using active surveillance, where researchers collect ticks from the environment. Case reports provide the basis for estimating the number of cases; however, they provide minimal information on vector population or pathogen dynamics. Active surveillance monitors ticks and sylvatic pathogens at local scales, but it is resource-intensive. As a result, data are often sparse and aggregated across time and space to increase statistical power to model or identify range changes. Engaging public participation in surveillance efforts allows spatially and temporally diverse samples to be collected with minimal effort. These citizen-driven tick collections have the potential to provide a powerful tool for tracking vector and pathogen changes. We used MaxEnt species distribution models to predict the current and future distribution of Ixodes pacificus across the Western US through the use of a nationwide citizen science tick collection program. Here, we present niche models produced through citizen science tick collections over two years. Despite obvious limitations with citizen science collections, the models are consistent with previously-predicted species ranges in California that utilized more than thirty years of traditional surveillance data. Additionally, citizen science allows for an expanded understanding of I. pacificus distribution in Oregon and Washington. With the potential for rapid environmental changes instigated by a burgeoning human population and rapid climate change, the development of tools, concepts, and methodologies that provide rapid, current, and accurate assessment of important ecological qualities will be invaluable for monitoring and predicting disease across time and space.

]]> <![CDATA[Probe into the targeted poverty mitigation policy in China based on causal inference: Evidence from Chongqing in the Three Gorges Reservoir region]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244928 A quantitative analysis of the panel data of 21 districts in Chongqing City in the Three Gorges Reservoir region from 1998 to 2015 was conducted to determine the influence of China’s focused poverty reduction policy in terms of causal inference. Specifically, the effects of this policy at the initial phase of execution through break-point regression; the impacts of this policy during the implementation period by using an instrumental variable panel regression; and comparative studies of the policy impacts by using the generalized synthetic control method. The outcomes showed that: (1) China’s state policy for specific poverty mitigation has a substantial impact on reducing poverty, which has been observed from the start of the enactment, namely, peasants' net income per capita from 2011 to 2013 increased by 13.9%, as compared to that during 2008–2010. Meanwhile, the net earnings of each farmer grew by 22% from 2011 to 2015 throughout the implementation phase of the policy, as opposed to that in 1998–2010. (2) Economic behavior in the marketplace and agricultural output figure of impoverished regions has significantly improved farmers' individual net income. (3) The comparative study further proves that the poverty mitigation policy has the effect of reducing poverty. Based on these findings, it is proposed that China should increase investment to consolidate its poverty alleviation policy in the most poverty-stricken areas, activate rural markets and develop agricultural production at the local level to accelerate poverty reduction in the region. The method of causal inference was utilized as an innovative method to study China’s focused poverty reduction policy for both immediate and permanent effects. It is the first time to use the generalized integrated control method, which is a causal inference frontier method, to further verify the effectiveness of poverty reduction policies.

]]> <![CDATA[Publishing, signaling, social capital, and gender: Determinants of becoming a tenured professor in German political science]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243514 We apply event history analysis to analyze career and publication data of virtually all political scientists in German university departments, showing that each published refereed journal article increases a political scientist’s chance for tenure by 9 percent, while other publications affect the odds for tenure only marginally and in some cases even negatively. Each received award and third party funding increases the odds for tenure by respectively 41 and 26 percent, while international experience, social capital and children hardly have a strong influence. Surprisingly, having degrees from a German university of excellence strongly decreases the odds for tenure. Women with similar credentials have at least 20 percent higher odds to get tenure than men. Our data therefore suggests that the lower factual hiring rates of women are better explained by a leaky pipeline, e.g. women leaving academia, rather than because women are not hired even when they are as productive as men. The article contributes to a better understanding of the role of meritocratic and non-meritocratic factors in achieving highly competitive job positions.

]]> <![CDATA[Perspectives of Singaporean biomedical researchers and research support staff on actual and ideal IRB review functions and characteristics: A quantitative analysis]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0241783

Background

Biomedical research is overseen by numerous Institutional Review Boards (IRBs) in Singapore but there has been no research that examines how the research review process is perceived by the local research community nor is there any systematic data on perceptions regarding the review process or other research ethics processes and IRB characteristics. The aim of this study was to ascertain general views regarding the overall perceived value of ethics review processes; to measure perceptions about local IRB functions and characteristics; to identify IRB functions and characteristics viewed as important; and to compare these views with those of other international studies.

Methods

An online survey was used with the main component being the IRB-Researcher Assessment Tool (IRB-RAT), a validated tool, to evaluate perceptions of ideal and actual IRB functions and characteristics held by Singaporean researchers and research support staff. Data were analysed descriptively first, with mean and SD of each item of IRB-RAT questionnaire reported, excluding the respondents whose answers were unknown or not applicable. The Wilcoxon Sign Rank test was used to compare the ideal and actual ratings of each IRB-RAT item, while the Mann-Whitney U test was used to compare the ratings of each IRB-RAT item between respondents with different characteristics. The Z-test was used to compare the mean ratings of our cohort with the mean ratings reported in the literature. The correlation between our mean ideal scores and those of two international studies also employing the IRB-RAT was examined.

Results

Seventy-one respondents completed the survey. This cohort generally held positive views of the impact of the ethics review process on: the quality of research; establishing and maintaining public trust in research; the protection of research participants; and on the scientific validity of research. The most important ideal IRB characteristics were timeliness, upholding participants’ rights while also facilitating research, working with investigators to find solutions when there are disagreements, and not allowing biases to affect reviews. For almost all 45 IRB-RAT statements, the rating of the importance of the characteristic was higher than the rating of how much that characteristic was descriptive of IRBs the respondents were familiar with. There was a significant strong correlation between our study’s scores on the ideal IRB characteristics and those of the first and largest published study that employed the IRB-RAT, the US National Validation (USNV) sample in Keith-Spiegel et al. [19].

Conclusions

An understanding of the perceptions held by Singaporean researchers and research support staff on the value that the ethics review process adds, their perceptions of actual IRB functions and characteristics as well as what they view as central to high functioning IRBs is the first step to considering the aspects of the review process that might benefit from improvements. This study provides insight into how our cohort compares to others internationally and highlights strengths and areas for improvement of Singapore IRBs as perceived by a small sample of the local research community. Such insights provide a springboard for additional research and may assist in further enhancing good relations so that both are working towards the same end.

]]> <![CDATA[Do people have an ethical obligation to share their health information? Comparing narratives of altruism and health information sharing in a nationally representative sample]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244767

Background

With the emergence of new health information technologies, health information can be shared across networks, with or without patients’ awareness and/or their consent. It is often argued that there can be an ethical obligation to participate in biomedical research, motivated by altruism, particularly when risks are low. In this study, we explore whether altruism contributes to the belief that there is an ethical obligation to share information about one’s health as well as how other health care experiences, perceptions, and concerns might be related to belief in such an obligation.

Methods

We conducted an online survey using the National Opinion Research Center’s (NORC) probability-based, nationally representative sample of U.S. adults. Our final analytic sample included complete responses from 2069 participants. We used multivariable logistic regression to examine how altruism, together with other knowledge, attitudes, and experiences contribute to the belief in an ethical obligation to allow health information to be used for research.

Results

We find in multivariable regression that general altruism is associated with a higher likelihood of belief in an ethical obligation to allow one’s health information to be used for research (OR = 1.22, SE = 0.14, p = 0.078). Trust in the health system and in care providers are both associated with a significantly higher likelihood of believing there is an ethical obligation to allow health information to be used (OR = 1.48, SE = 0.76, p<0.001; OR = 1.58, SE = 0.26, p<0.01, respectively).

Conclusions

Belief that there is an ethical obligation to allow one’s health information to be used for research is shaped by altruism and by one’s experience with, and perceptions of, health care and by general concerns about the use of personal information. Altruism cannot be assumed and researchers must recognize the ways encounters with the health care system influence (un)willingness to share one’s health information.

]]> <![CDATA[What’s the temperature in tropical caves?]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0237051 Hourly temperature was measured for approximately one year at 17 stations in three caves in Quintana Roo, Mexico. Thirteen of these stations were in the extensive twilight zones of all three caves. All seventeen stations showed seasonality in temperature with a 3°C drop during the Nortes season. Two of the caves, Muévelo Sabrosito and Muévelo Rico, showed greater variability during the winter months while in Río Secreto (Tuch) variability was greatest during the rainy season. Río Secreto is less open to the surface than the other two. All sites also showed a daily temperature cycle, although it was very faint in some Río Secreto (Tuch) sites. While temperature variability is diminished relative to surface variation, its temporal pattern is worthy of further study.

]]> <![CDATA[HeProMo: A decision support tool to estimate wood harvesting productivities]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244289 In the field of forestry, one of the most economically important ecosystem service is the provision of timber. The need to calculate the economic effects of forest management in the short, medium, and long term is increasing. Forest operations or timber harvesting, which comprises felling, processing, and transport of trees or timber, are responsible for a large part of the costs and environmental impacts associated to forest management or enterprises. From a decision maker’s perspective, it is essential to estimate working productivity and production costs under given operating conditions before any operation is conducted. This work addresses the lack of a valid collection of models that allows estimating time, productivities, and costs of labor and machinery for the most important forest operations in forest stands under Central European conditions. To create such models, we used data from forest enterprises, manual time studies, and the literature. This work presents a decision support tool that estimates the wood harvesting productivities of 12 different kinds of forest operations under Central European conditions. It includes forest operations using chainsaws, harvesters, skidders, forwarders, chippers, cable and tower yarders, and helicopters. In addition, the tool covers three models for wood volume estimation. The tool is written in Java and available open-source under the Apache License. This work shows how the tool can be used by describing its graphical user interface (GUI) and its application programming interface (API) that facilitates bulk processing of scientific data. Carefully selected default values allow estimations without knowing all input variables in detail. Each model is accompanied by an in-depth documentation where the forest operation, input variables, formulas, and statistical background are given. We conclude that HeProMo is a very useful tool for applications in forest practice, research, and teaching.

]]> <![CDATA[Variation in breast cancer grading in 1,636 resections assessed using control charts and in silico kappa]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0242656

Objective

Assess interpretative variation in Nottingham grading using control charts (CCs) and in silico kappa (ISK).

Methods

In house invasive breast cancer cases (2011–2019) at two institutions with a synoptic report were extracted. Pathologist interpretative rates (PIRs) were calculated and normed for Nottingham grade (G) and its components (tubular score (TS), nuclear score (NS), mitotic score (MS)) for pathologists interpreting >35 cases. ISKs were calculated using the ordered mutually exclusive category assumption (OMECA) and maximal categorical overlap assumption (MCOA).

Results

The study period included 1,994 resections. Ten pathologists each assessed 38–441 cases and together saw 1,636; these were further analyzed. The PIR medians (normed ranges) were: G1:24%(18–27%), G2:53%(43–56%) and G3:26%(19–33%). The MCOA ISK and the number of statistical outliers (p< 0.05/p< 0.001) to the group median interpretive rate (GMIR) for the ten pathologists was G1: 0.82(2/0 of 10), G2: 0.76(1/1), G3: 0.71(3/1), TS1: 0.79(1/0), TS2: 0.63(5/1), TS3: 0.66(5/1), NS1: 0.37(5/4), NS2: 0.60(4/3), NS3: 0.59(4/4), MS1: 0.78(3/1), MS2: 0.78(3/1), MS3: 0.77(2/0). The OMECA ISK was 0.62, 0.49, 0.69 and 0.71 for TS, NS, MS and G.

Conclusions

The nuclear score has the most outliers. NS1 appears to be inconsistently used. ISK mirrors trends in conventional kappa studies. CCs and ISK allow insight into interpretive variation and may be essential for the next generation in quality.

]]> <![CDATA[Individual- and country-level correlates of female permanent contraception use in sub-Saharan Africa]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243316

Background

Female permanent contraception is a cost-effective contraceptive method that can help clients with the desire to limit childbearing achieve their reproductive intention. However, despite its benefits, the use of FPC remains low in sub-Saharan Africa (SSA), and limited studies have examined the correlates of its uptake. In this study, we assessed the individual- and country-level factors associated with the use of FPC among married or in-union women using modern contraceptive methods to limit childbearing in SSA.

Methods

This study was a secondary data analysis of individual- and country-level data obtained from the Demographic and Health Surveys (DHS) Program and three open data repositories. The study included 29,777 married or in-union women aged 15–49 years using modern contraceptive methods to limit childbearing from DHS conducted in 33 sub-Sahara African countries between 2010 and 2018. We performed descriptive statistics and fitted multilevel logistic regression models to determine the predisposing, enabling, and need factors associated with the use of FPC.

Results

Approximately 13% of the women used FPC. About 20% of the variance in the odds of using FPC was attributable to between-country differences. In the full model, the significant individual-level factors associated with the use of FPC compared with other modern contraceptive methods were: age (odds ratio [OR] = 1.10; 95%CI = 1.08–1.12), living children (OR = 1.11, 95%CI = 1.04–1.16), high household wealth (OR = 1.39, 95%CI = 1.18–1.64), rural residence (OR = 0.83, 95% CI = 0.71–0.97), joint contraceptive decision with partner (OR = 1.68, 95% = 1.43–1.99), contraceptive decision by partner and others (OR = 2.46, 95% = 1.97–3.07), and the number of living children less than the ideal number of children (OR = 1.40, 95%CI = 1.21–1.62). The significantly associated country-level factors were births attended by skilled health providers (OR = 1.03, 95%CI = 1.00–1.05) and density of medical doctors (OR = 1.37, 95%CI = 1.01–1.85).

Conclusions

Our results suggest that both individual- and country-level factors affect uptake of FPC in SSA. Increasing geographic, economic, and psychosocial access to FPC may improve its uptake in SSA.

]]> <![CDATA[Directions in abusive language training data, a systematic review: Garbage in, garbage out]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243300 Data-driven and machine learning based approaches for detecting, categorising and measuring abusive content such as hate speech and harassment have gained traction due to their scalability, robustness and increasingly high performance. Making effective detection systems for abusive content relies on having the right training datasets, reflecting a widely accepted mantra in computer science: Garbage In, Garbage Out. However, creating training datasets which are large, varied, theoretically-informed and that minimize biases is difficult, laborious and requires deep expertise. This paper systematically reviews 63 publicly available training datasets which have been created to train abusive language classifiers. It also reports on creation of a dedicated website for cataloguing abusive language data hatespeechdata.com. We discuss the challenges and opportunities of open science in this field, and argue that although more dataset sharing would bring many benefits it also poses social and ethical risks which need careful consideration. Finally, we provide evidence-based recommendations for practitioners creating new abusive content training datasets.

]]> <![CDATA[Biosciences Proposal Bootcamp: Structured peer and faculty feedback improves trainees’ proposals and grantsmanship self-efficacy]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243973 Grant writing is an essential skill to develop for academic and other career success but providing individual feedback to large numbers of trainees is challenging. In 2014, we launched the Stanford Biosciences Grant Writing Academy to support graduate students and postdocs in writing research proposals. Its core program is a multi-week Proposal Bootcamp designed to increase the feedback writers receive as they develop and refine their proposals. The Proposal Bootcamp consisted of two-hour weekly meetings that included mini lectures and peer review. Bootcamp participants also attended faculty review workshops to obtain faculty feedback. Postdoctoral trainees were trained and hired as course teaching assistants and facilitated weekly meetings and review workshops. Over the last six years, the annual Bootcamp has provided 525 doctoral students and postdocs with multi-level feedback (peer and faculty). Proposals from Bootcamp participants were almost twice as likely to be funded than proposals from non-Bootcamp trainees. Overall, this structured program provided opportunities for feedback from multiple peer and faculty reviewers, increased the participants’ confidence in developing and submitting research proposals, while accommodating a large number of participants.

]]> <![CDATA[Ten simple rules for typographically appealing scientific texts]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008458 <![CDATA[Documenting contributions to scholarly articles using CRediT and <i>tenzing</i>]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0244611 Scholars traditionally receive career credit for a paper based on where in the author list they appear, but position in an author list often carries little information about what the contribution of each researcher was. “Contributorship” refers to a movement to formally document the nature of each researcher’s contribution to a project. We discuss the emerging CRediT standard for documenting contributions and describe a web-based app and R package called tenzing that is designed to facilitate its use. tenzing can make it easier for researchers on a project to plan and record their planned contributions and to document those contributions in a journal article.

]]> <![CDATA[Chemical graph generators]]> https://www.novareader.co/book/isbn/10.1371/journal.pcbi.1008504 Chemical graph generators are software packages to generate computer representations of chemical structures adhering to certain boundary conditions. Their development is a research topic of cheminformatics. Chemical graph generators are used in areas such as virtual library generation in drug design, in molecular design with specified properties, called inverse QSAR/QSPR, as well as in organic synthesis design, retrosynthesis or in systems for computer-assisted structure elucidation (CASE). CASE systems again have regained interest for the structure elucidation of unknowns in computational metabolomics, a current area of computational biology.

]]> <![CDATA[Research-based occupational therapy education: An exploration of students’ and faculty members’ experiences and perceptions]]> https://www.novareader.co/book/isbn/10.1371/journal.pone.0243544

Introduction

One argument for introducing research in bachelor`s degree in health care is to ensure the quality of future health care delivery. The requirements for research-based education have increased, and research on how research-based education is experienced is limited, especially in bachelor health care education programmes. The aim of this study was to explore how occupational therapy students and faculty members experienced and perceived research-based education.

Methods

This qualitative, interpretative description consisted of three focus group interviews with occupational therapy students in their final year (n = 8, 6 and 4), and three focus group interviews with faculty members affiliated with occupational therapy programmes in Norway (n = 5, 2 and 5). Interviewing both students and faculty members enabled us to explore the differences in their experiences and perceptions.

Results

Five integrative themes emerged from the analysis: “introducing research early”, “setting higher expectations”, “ensuring competence in research methods”, “having role models” and “providing future best practice”. Research was described as an important aspect of the occupational therapy bachelor program as it helps ensure that students achieve the necessary competence for offering future best practice. Students expressed a need to be introduced to research early in the program, and they preferred to have higher expectations regarding use of research. Competence in research methods and the importance of role models were also highlighted.

Conclusions

Undergraduate health care students are expected to be competent in using research. Findings from our study demonstrated that the participants perceived the use of research during training as important to ensure future best practice. Increasing the focus on research in the programme’s curricula and efforts to improve students’ formal training in research-specific skills could be a starting point towards increased use of research in the occupational therapy profession.

]]>