scholarly journals Connecting Chemistry with Global Challenges through Data Standards

2017 ◽  
Vol 39 (3) ◽  
Author(s):  
Ian Bruno ◽  
Jeremy G. Frey
Keyword(s):  
Wicked Problems ◽  
Research Community ◽  
Research Data ◽  
Free Flow ◽  
Valuable Resource ◽  
Data Standards ◽  
Global Challenges ◽  
Resource Needs ◽  
Transparency And Accountability ◽  
New Millennium

AbstractThe new millennium, now almost 20 years old, has been characterised by a recognition within the research community of the importance of the free flow of research data; not simply in the ability to access the data, but also in the understanding that this valuable resource needs to be reused and built upon. We believe there have been at least two main drivers for this. First, those who pay for the research want to know it is leading to useful outcomes with impact–the transparency and accountability agenda. Second is an appreciation that the major global concerns (food, health, climate, economy) are extraordinarily complex (‘wicked’) problems, [

scholarly journals riboCIRC: a comprehensive database of translatable circRNAs

2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Huihui Li ◽  
Mingzhe Xie ◽  
Yan Wang ◽  
Ludong Yang ◽  
Zhi Xie ◽  
...  
Keyword(s):  
De Novo ◽  
Species Conservation ◽  
Structure And Function ◽  
Research Community ◽  
Genome Browser ◽  
Valuable Resource ◽  
Sequence Structure ◽  
A Genome ◽  
Context Specific ◽  
And Function

AbstractriboCIRC is a translatome data-oriented circRNA database specifically designed for hosting, exploring, analyzing, and visualizing translatable circRNAs from multi-species. The database provides a comprehensive repository of computationally predicted ribosome-associated circRNAs; a manually curated collection of experimentally verified translated circRNAs; an evaluation of cross-species conservation of translatable circRNAs; a systematic de novo annotation of putative circRNA-encoded peptides, including sequence, structure, and function; and a genome browser to visualize the context-specific occupant footprints of circRNAs. It represents a valuable resource for the circRNA research community and is publicly available at http://www.ribocirc.com.

scholarly journals NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany

2020 ◽  
Vol 6 ◽  
Author(s):  
Christoph Steinbeck ◽  
Oliver Koepler ◽  
Felix Bach ◽  
Sonja Herres-Pawlis ◽  
Nicole Jung ◽  
...  
Keyword(s):  
Data Management ◽  
Data Science ◽  
Open Data ◽  
Research Data ◽  
Data Standards ◽  
Data Repositories ◽  
Data Infrastructure ◽  
Research Data Management ◽  
Wide Range ◽  
Chemistry Community

The vision of NFDI4Chem is the digitalisation of all key steps in chemical research to support scientists in their efforts to collect, store, process, analyse, disclose and re-use research data. Measures to promote Open Science and Research Data Management (RDM) in agreement with the FAIR data principles are fundamental aims of NFDI4Chem to serve the chemistry community with a holistic concept for access to research data. To this end, the overarching objective is the development and maintenance of a national research data infrastructure for the research domain of chemistry in Germany, and to enable innovative and easy to use services and novel scientific approaches based on re-use of research data. NFDI4Chem intends to represent all disciplines of chemistry in academia. We aim to collaborate closely with thematically related consortia. In the initial phase, NFDI4Chem focuses on data related to molecules and reactions including data for their experimental and theoretical characterisation. This overarching goal is achieved by working towards a number of key objectives: Key Objective 1: Establish a virtual environment of federated repositories for storing, disclosing, searching and re-using research data across distributed data sources. Connect existing data repositories and, based on a requirements analysis, establish domain-specific research data repositories for the national research community, and link them to international repositories. Key Objective 2: Initiate international community processes to establish minimum information (MI) standards for data and machine-readable metadata as well as open data standards in key areas of chemistry. Identify and recommend open data standards in key areas of chemistry, in order to support the FAIR principles for research data. Finally, develop standards, if there is a lack. Key Objective 3: Foster cultural and digital change towards Smart Laboratory Environments by promoting the use of digital tools in all stages of research and promote subsequent Research Data Management (RDM) at all levels of academia, beginning in undergraduate studies curricula. Key Objective 4: Engage with the chemistry community in Germany through a wide range of measures to create awareness for and foster the adoption of FAIR data management. Initiate processes to integrate RDM and data science into curricula. Offer a wide range of training opportunities for researchers. Key Objective 5: Explore synergies with other consortia and promote cross-cutting development within the NFDI. Key Objective 6: Provide a legally reliable framework of policies and guidelines for FAIR and open RDM.

scholarly journals FEEDBACK ON A PUBLICLY DISTRIBUTED IMAGE DATABASE: THE MESSIDOR DATABASE

2014 ◽  
Vol 33 (3) ◽  
pp. 231 ◽  
Author(s):  
Etienne Decencière ◽  
Xiwei Zhang ◽  
Guy Cazuguel ◽  
Bruno Lay ◽  
Béatrice Cochener ◽  
...  
Keyword(s):  
Diabetic Retinopathy ◽  
Image Database ◽  
Research Community ◽  
Fundus Images ◽  
Public Research ◽  
Valuable Resource ◽  
Lesion Segmentation ◽  
The Real ◽  
The Public

The Messidor database, which contains hundreds of eye fundus images, has been publicly distributed since 2008. It was created by the Messidor project in order to evaluate automatic lesion segmentation and diabetic retinopathy grading methods. Designing, producing and maintaining such a database entails significant costs. By publicly sharing it, one hopes to bring a valuable resource to the public research community. However, the real interest and benefit of the research community is not easy to quantify. We analyse here the feedback on the Messidor database, after more than 6 years of diffusion. This analysis should apply to other similar research databases.

scholarly journals Kutatási adatkezelést támogató szolgáltatás a Szegedi Tudományegyetemen

2021 ◽  
Author(s):  
Rozália Zeller ◽  
Szabolcs Hoczopán ◽  
Gyula Nagy
Keyword(s):  
Data Management ◽  
Research Community ◽  
Research Data ◽  
Data Repository ◽  
Institutional Research ◽  
Research Data Management ◽  
International Trends ◽  
Professional Assistance ◽  
Management Recommendations ◽  
The University

Following the national and international trends in mid-2020 the Klebelsberg Kuno Library of the University of Szeged has also started to deal with the issue of research data management. After thorough self-training the library staff studied the Hungarian and international best practices of managing research data. We tried to assess the needs of the institutional research data management habits and the opinion of the researchers of SZTE with a comprehensive questionnaire. We compiled a comprehensive questionnaire to assess the needs of our researchers, learn what they’re thinking about RDM and what kind of practices regarding RDM already exist in the research community. By evaluating the questionnaire we have determined the areas in which the library could provide professional assistance where there was a real need among researchers. Keeping in mind the needs of the research community of University of Szeged we have decided to develop the following services: copyright consulting, RDM trainings for PhD students, theoretical and methodological assistance for RDM, write institutional FAIR data management recommendations. The last four services have been successfully implemented. We also wrote a feasibility study to assess the possibilities of developing our own institutional data repository.

scholarly journals Standardization Initiatives in the (eco)toxicogenomics Domain: A Review

2004 ◽  
Vol 5 (8) ◽  
pp. 633-641 ◽  
Author(s):  
Susanna Assunta Sansone ◽  
Norman Morrison ◽  
Philippe Rocca-Serra ◽  
Jennifer Fostel
Keyword(s):  
Data Management ◽  
Research Community ◽  
Target Audience ◽  
Environmental Applications ◽  
Data Standards ◽  
Exchange Of Information ◽  
Management Issues

The purpose of this document is to provide readers with a resource of different ongoing standardization efforts within the ‘omics’ (genomic, proteomics, metabolomics) and related communities, with particular focus on toxicological and environmental applications. The review includes initiatives within the research community as well as in the regulatory arena. It addresses data management issues (format and reporting structures for the exchange of information) and database interoperability, highlighting key objectives, target audience and participants. A considerable amount of work still needs to be done and, ideally, collaboration should be optimized and duplication and incompatibility should be avoided where possible. The consequence of failing to deliver data standards is an escalation in the burden and cost of data management tasks.

The Spoken British National Corpus 2014 – a new initiative launched by Lancaster University and Cambridge University Press

English Today ◽  
2018 ◽  
Vol 35 (1) ◽  
pp. 54-58
Author(s):  
Daria Bębeniec
Keyword(s):  
Research Community ◽  
Valuable Resource ◽  
British English ◽  
Cambridge University ◽  
Written Texts ◽  
Wide Range ◽  
The World ◽  
British National Corpus ◽  
National Corpus

The British National Corpus (BNC) has been available to the research community for more than two decades. Over the course of its three editions to date, this 100-million-word database, containing samples of both transcribed speech and written texts representing British English of the 1990s and earlier, has established itself as a valuable resource used around the world in a wide range of language-related applications.

scholarly journals Quality and Trust in the European Open Science Cloud

2020 ◽  
Vol 15 (1) ◽  
pp. 8
Author(s):  
Juan Carlos Bicarregui
Keyword(s):  
Virtual Environment ◽  
Open Science ◽  
Research Community ◽  
Research Data ◽  
Cultural Aspects ◽  
Scientific Disciplines ◽  
Use Of Research

The European Open Science Cloud (EOSC) has the objective to provide a virtual environment offering open and seamless services for the re-use of research data across borders and scientific disciplines. This ambitious vision sets significant challenges that the research community must meet if the benefits of EOSC are to be realised. One of those challenges, which has both technical and cultural aspects, is to determine the “Rules of Participation” that enable users to assess the quality of the data and services provided through EOSC and thereby enable them to trust the data and services they access. This paper discusses some issues relevant to determining the Rules of Participation that will enable EOSC to meet these objectives.  

scholarly journals Data Standards for the Phenology of Plant Specimens

2021 ◽  
Vol 5 ◽  
Author(s):  
Katelin Pearson ◽  
Libby Ellwood ◽  
Edward Gilbert ◽  
Rob Guralnick ◽  
James Macklin ◽  
...  
Keyword(s):  
Task Group ◽  
Valuable Resource ◽  
Data Standards ◽  
Valuable Data ◽  
Phenological Data ◽  
Darwin Core ◽  
Data User ◽  
Reproductive Events ◽  
Further Development ◽  
Plant Specimen

Phenological data (i.e., data on growth and reproductive events of organisms) are increasingly being used to study the effects of climate change, and biodiversity specimens have arisen as important sources of phenological data. However, phenological data are not expressly treated by the Darwin Core standard (Wieczorek et al. 2012), and specimen-based phenological data have been codified and stored in various Darwin Core fields using different vocabularies, making phenological data difficult to access, aggregate, and therefore analyze at scale across data sources. The California Phenology Network, an herbarium digitization collaboration launched in 2018, has harvested phenological data from over 1.4 million angiosperm specimens from California herbaria (Yost et al. 2020). We developed interim standards by which to score and store these data, but further development is needed for adoption of ideal phenological data standards into the Darwin Core. To this end, we are forming a Plant Specimen Phenology Task Group to develop a phenology extension for the Darwin Core standard. We will create fields into which phenological data can be entered and recommend a standardized vocabulary for use in these fields using the Plant Phenology Ontology (Stucky et al. 2018, Brenskelle et al. 2019). We invite all interested parties to become part of this Task Group and thereby contribute to the accesibility and use of these valuable data. In this talk, we will describe the need for plant phenological data standards, current challenges to developing such standards, and outline the next steps of the Task Group toward providing this valuable resource to the data user community.

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