Archives des mots-clés : life sciences

An iterative and interdisciplinary categorisation process towards FAIRer digital resources for sensitive life-sciences data

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Authors : Romain David, Christian Ohmann, Jan‑Willem Boiten, Mónica Cano Abadía, Florence Bietrix, Steve Canham, Maria Luisa Chiusano, Walter Dastrù, Arnaud Laroquette, Dario Longo, Michaela Th. Mayrhofer, Maria Panagiotopoulou, Audrey S. Richard, Sergey Goryanin, Pablo Emilio Verde

For life science infrastructures, sensitive data generate an additional layer of complexity. Cross-domain categorisation and discovery of digital resources related to sensitive data presents major interoperability challenges. To support this FAIRification process, a toolbox demonstrator aiming at support for discovery of digital objects related to sensitive data (e.g., regulations, guidelines, best practice, tools) has been developed.

The toolbox is based upon a categorisation system developed and harmonised across a cluster of 6 life science research infrastructures. Three different versions were built, tested by subsequent pilot studies, finally leading to a system with 7 main categories (sensitive data type, resource type, research field, data type, stage in data sharing life cycle, geographical scope, specific topics).

109 resources attached with the tags in pilot study 3 were used as the initial content for the toolbox demonstrator, a software tool allowing searching of digital objects linked to sensitive data with filtering based upon the categorisation system.

Important next steps are a broad evaluation of the usability and user-friendliness of the toolbox, extension to more resources, broader adoption by different life-science communities, and a long-term vision for maintenance and sustainability.

URL : An iterative and interdisciplinary categorisation process towards FAIRer digital resources for sensitive life-sciences data

DOI : https://doi.org/10.1038/s41598-022-25278-z

Research integrity guidelines in the academic environment: The context of Brazilian institutions with retracted publications in health and life sciences

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Authors : Rafaelly Stavale, Vanja Pupovac, Graziani Izidoro Ferreira, Dirce Bellezi Guilhem

Although research misconduct is responsible for most retractions in health and life sciences from authors affiliated with Brazilian institutions, there are few studies evaluating retraction notices and research misconduct in the country.

Understanding the form of research misconduct may share light on the weaknesses and strengths of individual, organizational, and structural factors toward the implementation of a research integrity culture.

This review on policies and practices aims to access the available information from research integrity offices and the guidelines from Brazilian funding institutions and universities who were involved in retractions in health and life science publications based on a previously published systematic review.

Additionally, we summarize the available guidelines and policies for research integrity in the country. Additionally, we searched publicly available guidelines and offices for research integrity.

In total, 15 institutions were analyzed: five funding agencies and 10 universities. Approximately 40% of the funding agencies promoted local research, and 60% promoted national research. Considering national funding agencies, 66% had the commission on research integrity. Approximately 30% of the universities do not have the official office for research integrity or any publicly available guidelines.

Most institutions involved in retractions due to some form of research misconduct. Brazilian institutions involved in publication retractions lack instruments to prevent, supervise, and sanction research misconduct. Institutions of the country have insufficiently developed a system to promote and sustain research integrity practices.

Nevertheless, there is a positive movement of researchers who are engaged in the investigation of research integrity, policy creation and training.

This study emphasizes increased influence of Brazilian scientific collaboration and production globally as well as the impact of retractions in medical sciences. In contrast, it addresses the need for clear research integrity policies to foster high-quality and trustworthy research.

URL : Research integrity guidelines in the academic environment: The context of Brazilian institutions with retracted publications in health and life sciences

DOI : https://doi.org/10.3389/frma.2022.991836

First Line Research Data Management for Life Sciences: a Case Study

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Authors : J. Paul van Schayck, Maarten Coonen

Modern life sciences studies depend on the collection, management and analysis of comprehensive datasets in what has become data-intensive research. Life science research is also characterised by having relatively small groups of researchers.

This combination of data-intensive research performed by a few people has led to an increasing bottleneck in research data management (RDM). Parallel to this, there has been an urgent call by initiatives like FAIR and Open Science to openly publish research data which has put additional pressure on improving the quality of RDM.

Here, we reflect on the lessons learnt by DataHub Maastricht, a RDM support group of the Maastricht University Medical Centre (MUMC+) in Maastricht, the Netherlands, in providing first-line RDM support for life sciences.

DataHub Maastricht operates with a small core team, and is complemented with disciplinary data stewards, many of whom have joint positions with DataHub and a research group. This organisational model helps creating shared knowledge between DataHub and the data stewards, including insights how to focus support on the most reusable datasets. This model has shown to be very beneficial given limited time and personnel.

We found that co-hosting tailored platforms for specific domains, reducing storage costs by implementing tiered storage and promoting cross-institutional collaboration through federated authentication were all effective features to stimulate researchers to initiate RDM.

Overall, utilising the expertise and communication channel of the embedded data stewards was also instrumental in our RDM success. Looking into the future, we foresee the need to further embed the role of data stewards into the lifeblood of the research organisation, along with policies on how to finance long-term storage of research data.

The latter, to remain feasible, needs to be combined with a further formalising of appraisal and reappraisal of archived research data.

URL : First Line Research Data Management for Life Sciences: a Case Study

DOI : https://doi.org/10.2218/ijdc.v16i1.761

Globally Accessible Distributed Data Sharing (GADDS): a decentralized FAIR platform to facilitate data sharing in the life sciences

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Authors : Pavel Vazquez, Kayoko Hirayama-Shoji, Steffen Novik, Stefan Krauss, Simon Rayner

Motivation

Technical advances have revolutionized the life sciences and researchers commonly face challenges associated with handling large amounts of heterogeneous digital data. The Findable, Accessible, Interoperable and Reusable (FAIR) principles provide a framework to support effective data management.

However, implementing this framework is beyond the means of most researchers in terms of resources and expertise, requiring awareness of metadata, policies, community agreements, and other factors such as vocabularies and ontologies.

Results

We have developed the Globally Accessible Distributed Data Sharing (GADDS) platform to facilitate FAIR-like data-sharing in cross-disciplinary research collaborations. The platform consists of (i) a blockchain based metadata quality control system, (ii) a private cloud-like storage system and (iii) a version control system. GADDS is built with containerized technologies, providing minimal hardware standards and easing scalability, and offers decentralized trust via transparency of metadata, facilitating data exchange and collaboration.

As a use case, we provide an example implementation in engineered living material technology within the Hybrid Technology Hub at the University of Oslo.

URL : Globally Accessible Distributed Data Sharing (GADDS): a decentralized FAIR platform to facilitate data sharing in the life sciences

DOI : https://doi.org/10.1093/bioinformatics/btac362

Attitudes, willingness, and resources to cover article publishing charges: The influence of age, position, income level country, discipline and open access habits

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Authors : Francisco Segado-Boj, Juan-Jose Prieto-Gutiérrez, Juan Martín-Quevedo

The rise of open access (OA) publishing has been followed by the expansion of the Article Publishing Charges (APC) that moves the financial burden of scholarly journal publishing from libraries and readers to authors.

We introduce the results of an international randomly selected sampled survey (N = 3,422) that explores attitudes towards this pay-to-publish or Gold OA model among scholars. We test the predictor role of age, professional position, discipline, and income-level country in this regard.

We found that APCs are perceived more as a global threat to Science than a deterrent to personal professional careers. Academics in low and lower-middle income level countries hold the most unfavourable opinions about the APC system.

The less experimental disciplines held more negative perceptions of APC compared to STEM and the Life Sciences. Age and access to external funding stood as negative predictors of refusal to pay to publish. Commitment to OA self-archiving predicted the negative global perception of the APC.

We conclude that access to external research funds influences the acceptance and the particular perception of the pay to publish model, remarking the economic dimension of the problem and warning about issues in the inequality between centre and periphery.

URL : Attitudes, willingness, and resources to cover article publishing charges: The influence of age, position, income level country, discipline and open access habits

DOI : https://doi.org/10.1002/leap.1455

Growth rates of modern science: a latent piecewise growth curve approach to model publication numbers from established and new literature databases

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Authors : Lutz Bornmann, Robin Haunschild, Rüdiger Mutz

Growth of science is a prevalent issue in science of science studies. In recent years, two new bibliographic databases have been introduced, which can be used to study growth processes in science from centuries back: Dimensions from Digital Science and Microsoft Academic.

In this study, we used publication data from these new databases and added publication data from two established databases (Web of Science from Clarivate Analytics and Scopus from Elsevier) to investigate scientific growth processes from the beginning of the modern science system until today.

We estimated regression models that included simultaneously the publication counts from the four databases. The results of the unrestricted growth of science calculations show that the overall growth rate amounts to 4.10% with a doubling time of 17.3 years. As the comparison of various segmented regression models in the current study revealed, models with four or five segments fit the publication data best.

We demonstrated that these segments with different growth rates can be interpreted very well, since they are related to either phases of economic (e.g., industrialization) and/or political developments (e.g., Second World War).

In this study, we additionally analyzed scientific growth in two broad fields (Physical and Technical Sciences as well as Life Sciences) and the relationship of scientific and economic growth in UK.

The comparison between the two fields revealed only slight differences. The comparison of the British economic and scientific growth rates showed that the economic growth rate is slightly lower than the scientific growth rate.

URL : Growth rates of modern science: a latent piecewise growth curve approach to model publication numbers from established and new literature databases

DOI : https://doi.org/10.1057/s41599-021-00903-w

Academic Teams and Commercialization in the Life Sciences

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Authors : Paige Clayton, Maryann Feldman

We review the literature on entrepreneurial team formation with a focus on data to study academic teams and summarize our empirical work on the life sciences industry.

We consider how academics form teams to start new companies and the implications of various configurations on firm behavior with regards to patenting, survival and firm growth.

We present several empirical challenges facing research on academic teams and conclude with suggestions for future research.

URL : Academic Teams and Commercialization in the Life Sciences

DOI : https://doi.org/10.3389/frma.2021.733073