biomedical research – Page 24 – InfoDoc MicroVeille

On the value of preprints: an early career researcher perspective

Posté le 4 décembre 2018 par Hans Dillaerts

Authors : Sarvenaz Sarabipour, Humberto J Debat, Edward Emmott, Steven Burgess, Benjamin Schwessinger, Zach Hensel

Peer-reviewed journal publication is the main means for academic researchers in the life sciences to create a permanent, public record of their work. These publications are also the de facto currency for career progress, with a strong link between journal brand recognition and perceived value.

The current peer-review process can lead to long delays between submission and publication, with cycles of rejection, revision and resubmission causing redundant peer review.

This situation creates unique challenges for early career researchers (ECRs), who rely heavily on timely publication of their work to gain recognition for their efforts. ECRs face changes in the academic landscape including the increased interdisciplinarity of life sciences research, expansion of the researcher population and consequent shifts in employer and funding demands.

The publication of preprints, publicly available scientific manuscripts posted on dedicated preprint servers prior to journal managed peer-review, can play a key role in addressing these ECR challenges.

Preprinting benefits include rapid dissemination of academic work, open access, establishing priority or concurrence, receiving feedback and facilitating collaborations. While there is a growing appreciation for and adoption of preprints, a minority of all articles in life sciences and medicine are preprinted.

The current low rate of preprint submissions in life sciences and ECR concerns regarding preprinting needs to be addressed.

We provide a perspective from an interdisciplinary group of early career researchers on the value of preprints and advocate the wide adoption of preprints to advance knowledge and facilitate career development.

URL : On the value of preprints: an early career researcher perspective

DOI : https://doi.org/10.7287/peerj.preprints.27400v1

Returning Individual Research Results to Participants

Posté le 24 novembre 2018 par Hans Dillaerts

Authors : National Academies of Sciences, Engineering, and Medicine; Health and Medicine Division; Board on Health Sciences Policy; Committee on the Return of Individual-Specific Research Results Generated in Research Laboratories. Editors: Autumn S. Downey, Emily R. Busta, Michelle Mancher, and Jeffrey R. Botkin

When is it appropriate to return individual research results to participants? The immense interest in this question has been fostered by the growing movement toward greater transparency and participant engagement in the research enterprise.

Yet, the risks of returning individual research results—such as results with unknown validity—and the associated burdens on the research enterprise are competing considerations.

Returning Individual Research Results to Participants reviews the current evidence on the benefits, harms, and costs of returning individual research results, while also considering the ethical, social, operational, and regulatory aspects of the practice.

This report includes 12 recommendations directed to various stakeholders—investigators, sponsors, research institutions, institutional review boards (IRBs), regulators, and participants—and are designed to help (1) support decision making regarding the return of results on a study-by-study basis, (2) promote high-quality individual research results, (3) foster participant understanding of individual research results, and (4) revise and harmonize current regulations.

URL : https://www.ncbi.nlm.nih.gov/books/NBK513173/

Reproducible research practices, transparency, and open access data in the biomedical literature, 2015–2017

Posté le 24 novembre 2018 par Hans Dillaerts

Authors : Joshua D. Wallach, Kevin W. Boyack, John P. A. Ioannidis

Currently, there is a growing interest in ensuring the transparency and reproducibility of the published scientific literature. According to a previous evaluation of 441 biomedical journals articles published in 2000–2014, the biomedical literature largely lacked transparency in important dimensions.

Here, we surveyed a random sample of 149 biomedical articles published between 2015 and 2017 and determined the proportion reporting sources of public and/or private funding and conflicts of interests, sharing protocols and raw data, and undergoing rigorous independent replication and reproducibility checks.

We also investigated what can be learned about reproducibility and transparency indicators from open access data provided on PubMed. The majority of the 149 studies disclosed some information regarding funding (103, 69.1% [95% confidence interval, 61.0% to 76.3%]) or conflicts of interest (97, 65.1% [56.8% to 72.6%]).

Among the 104 articles with empirical data in which protocols or data sharing would be pertinent, 19 (18.3% [11.6% to 27.3%]) discussed publicly available data; only one (1.0% [0.1% to 6.0%]) included a link to a full study protocol. Among the 97 articles in which replication in studies with different data would be pertinent, there were five replication efforts (5.2% [1.9% to 12.2%]).

Although clinical trial identification numbers and funding details were often provided on PubMed, only two of the articles without a full text article in PubMed Central that discussed publicly available data at the full text level also contained information related to data sharing on PubMed; none had a conflicts of interest statement on PubMed.

Our evaluation suggests that although there have been improvements over the last few years in certain key indicators of reproducibility and transparency, opportunities exist to improve reproducible research practices across the biomedical literature and to make features related to reproducibility more readily visible in PubMed.

URL : Reproducible research practices, transparency, and open access data in the biomedical literature, 2015–2017

DOI : https://doi.org/10.1371/journal.pbio.2006930

Sharing health research data – the role of funders in improving the impact

Posté le 17 octobre 2018 par Hans Dillaerts

Authors : Robert F. Terry, Katherine Littler, Piero L. Olliaro

Recent public health emergencies with outbreaks of influenza, Ebola and Zika revealed that the mechanisms for sharing research data are neither being used, or adequate for the purpose, particularly where data needs to be shared rapidly.

A review of research papers, including completed clinical trials related to priority pathogens, found only 31% (98 out of 319 published papers, excluding case studies) provided access to all the data underlying the paper – 65% of these papers give no information on how to find or access the data.

Only two clinical trials out of 58 on interventions for WHO priority pathogens provided any link in their registry entry to the background data.

Interviews with researchers revealed a reluctance to share data included a lack of confidence in the utility of the data; an absence of academic-incentives for rapid dissemination that prevents subsequent publication and a disconnect between those who are collecting the data and those who wish to use it quickly.

The role of the funders of research needs to change to address this. Funders need to engage early with the researchers and related stakeholders to understand their concerns and work harder to define the more explicitly the benefits to all stakeholders.

Secondly, there needs to be a direct benefit to sharing data that is directly relevant to those people that collect and curate the data.

Thirdly more work needs to be done to realise the intent of making data sharing resources more equitable, ethical and efficient.

Finally, a checklist of the issues that need to be addressed when designing new or revising existing data sharing resources should be created. This checklist would highlight the technical, cultural and ethical issues that need to be considered and point to examples of emerging good practice that can be used to address them.

URL : Sharing health research data – the role of funders in improving the impact

DOI : http://dx.doi.org/10.12688/f1000research.16523.1

Nanopublications: A Growing Resource of Provenance-Centric Scientific Linked Data

Posté le 24 septembre 2018 par Hans Dillaerts

Authors : Tobias Kuhn, Albert Meroño-Peñuela, Alexander Malic, Jorrit H. Poelen, Allen H. Hurlbert, Emilio Centeno Ortiz, Laura I. Furlong, Núria Queralt-Rosinach, Christine Chichester, Juan M. Banda, Egon Willighagen, Friederike Ehrhart, Chris Evelo, Tareq B. Malas, Michel Dumontier

Nanopublications are a Linked Data format for scholarly data publishing that has received considerable uptake in the last few years. In contrast to the common Linked Data publishing practice, nanopublications work at the granular level of atomic information snippets and provide a consistent container format to attach provenance and metadata at this atomic level.

While the nanopublications format is domain-independent, the datasets that have become available in this format are mostly from Life Science domains, including data about diseases, genes, proteins, drugs, biological pathways, and biotic interactions.

More than 10 million such nanopublications have been published, which now form a valuable resource for studies on the domain level of the given Life Science domains as well as on the more technical levels of provenance modeling and heterogeneous Linked Data.

We provide here an overview of this combined nanopublication dataset, show the results of some overarching analyses, and describe how it can be accessed and queried.

URL : https://arxiv.org/abs/1809.06532

Open Access E-Books in the Field of Health Sciences: A Scientometric Study

Posté le 15 août 2018 par Hans Dillaerts

Authors : Fayaz Ahmad Loan, Ufaira Yaseen Shah

The Directory of Open Access Books (DOAB) is a discovery service for open access e-books. It provides a searchable index to peer-reviewed e-books published under an open access business model.

The present study aims to assess the scientometric trends of the open access e-books in the field of the Health Sciences available through the Directory of Open Access Books. In order to fulfil the set objectives, the relevant details of the Health Sciences e-books were collected.

The results reveal that 916 e-books are available in the field of the Health Sciences through the Directory of Open Access. The highest number of e-books is contributed in General Medicine (40.61%, 372) and in the English language (83.84%, 768). These e-books also contain current information as the majority (88.32%, 809) of these are published from 2011 onwards by the reputed publishers like Frontiers Media, SciELO, Springer, Palgrave Macmillan, and Oxford University Press etc.

The Directory of Open Access Books was selected as a source for data collection whereas the Health Sciences was selected as the field of study. Therefore, the finding can’t be generalised across directories and subjects.

URL : Open Access E-Books in the Field of Health Sciences: A Scientometric Study

Alternative location : https://ijism.ricest.ac.ir/index.php/ijism/article/view/1272