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A Practical Approach of Actions for FAIRification Workflows [article]

Natalia Queiroz de Oliveira, Vânia Borges, Henrique F. Rodrigues, Maria Luiza Machado Campos, Giseli Rabello Lopes
2022 arXiv   pre-print
This paper presents a workflow of actions that is being adopted in the VODAN BR pilot for generating FAIR (meta)data for COVID-19 research.  ...  Although defined for a particular use case, it is expected that this workflow can be applied for other epidemical research and in other domains, benefiting the entire scientific community.  ...  This work has been partially supported with students grants from CAPES (Process numbers 223038.014313/2020-19 and 88887.613048/2021-00), CNPq (Process number 158474/2020-1) and UNIRIO.  ... 
arXiv:2201.07866v1 fatcat:5bfrhbd27jcxbnwiyziujdrxzq

From Raw Data to FAIR Data: The FAIRification Workflow for Health Research

A. Anil Sinaci, Francisco J. Núñez-Benjumea, Mert Gencturk, Malte-Levin Jauer, Thomas Deserno, Catherine Chronaki, Giorgio Cangioli, Carlos Cavero-Barca, Juan M. Rodríguez-Pérez, Manuel M. Pérez-Pérez, Gokce B. Laleci Erturkmen, Tony Hernández-Pérez (+2 others)
2020 Methods of Information in Medicine  
GO FAIR - a bottom-up, stakeholder driven and self-governed initiative - defined a seven-step FAIRification process focusing on data, but also indicating the required work for metadata.  ...  Methods A common FAIRification workflow was developed by applying restrictions on existing steps and introducing new steps for specific requirements of health data.  ...  Aguayo-Canela, with a file number GA82466 in Seville, September 25, 2018.  ... 
doi:10.1055/s-0040-1713684 pmid:32620019 fatcat:a7mpkludszd5zauhy2nivhhbou

The de novo FAIRification process of a registry for vascular anomalies

Karlijn H. J. Groenen, Annika Jacobsen, Martijn G. Kersloot, Bruna dos Santos Vieira, Esther van Enckevort, Rajaram Kaliyaperumal, Derk L. Arts, Peter A. C. 't Hoen, Ronald Cornet, Marco Roos, Leo Schultze Kool
2021 Orphanet Journal of Rare Diseases  
Here, we describe the five phases of this process in detail: (i) pre-FAIRification, (ii) facilitating FAIRification, (iii) data collection, (iv) generating FAIR data in real-time, and (v) using FAIR data  ...  Conclusions In conclusion, a detailed de novo FAIRification process of a registry for vascular anomalies is described.  ...  Acknowledgements We thank Maria Barea for her input as a patient advocate and Mark D. Wilkinson for his input on the FAIR data principles.  ... 
doi:10.1186/s13023-021-02004-y pmid:34481493 fatcat:bnqumiyarjghrgrd7vgegestxi

Helis Academy course FAIR data stewardship 2021, Day 6, Metadata FAIR Data Point

Rajaram Kaliyaperumal
2021 Zenodo  
This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 6, March 31, 2021 https://www.aanmelder.nl/fair-data-stewardship-2021 https://helisacademy.com  ...  /en/data-analysis-stewardship Topic: metadata, FAIR Data Point  ...  A generic workflow for the FAIRification process. Data Intelligence 2019.  ... 
doi:10.5281/zenodo.4697038 fatcat:suvsfohegrcsfhh2jqzd5ei3s4

FAIRplus: D1.2 Selection criteria and guidelines for data sources from IMI projects and EFPIA internal databases

Philip Gribbon, Wei Gu, Ferran Sanz, Vassilios Ioannidis, Ola Engkvist, David Henderson, Dorothy Reilly, Philippe Rocca-Serra, Andrea Zaliani, Gesa Witt, Manfred Kohler, Robert Giessmann
2019 Zenodo  
Creating selection criteria and guidelines, to aid identification of IMI datasets with the potential to generate high societal impact upon FAIRification, is an important goal of FAIRplus.  ...  This deliverable report describes the process put in place to identify, evaluate and select projects.  ...  For the remaining 105 projects a scoring scheme has to be applied to select the most relevant data sets for the FAIRification process. Several approaches were tested to find a suitable solution.  ... 
doi:10.5281/zenodo.3596024 fatcat:6xaxc3btjnbdpoppff5wzc5mqy

De-novo FAIRification via an Electronic Data Capture system by automated transformation of filled electronic Case Report Forms into machine-readable data [article]

Martijn G. Kersloot, Annika Jacobsen, Karlijn H.J. Groenen, Bruna dos Santos Vieira, Rajaram Kaliyaperumal, Ameen Abu-Hanna, Ronald Cornet, Peter A.C. 't Hoen, Marco Roos, Leo Schultze Kool, Derk L. Arts
2021 medRxiv   pre-print
De-novo FAIRification, on the other hand, incorporates the FAIRification steps in the process of a research project.  ...  By implementing a de-novo FAIRification process in such a system, the reusability and, thus, scalability of FAIRification across research projects can be greatly improved.  ...  FAIRification process Jacobsen et al. proposed a general FAIRification workflow consisting of seven main steps [12] .  ... 
doi:10.1101/2021.03.04.21250752 fatcat:asmor7cw4vbnzamdagqomwq7be

APPLICATIONS OF LINKED DATA IN THE LIFE SCIENCES [article]

Jasper Koehorst
2019 Figshare  
Presentation is about the usage of linked data technologies, old and new which we use in our department for research on biological systems.  ...  Presentation which was held during the WDCC event Applications of Linked Data on the 26th of September 2019.  ...  EMPUSA: ONTOLOGY VALIDATOR & CODE GENERATOR EMPUSA GENERATES THE CODE THAT CAN ACT AS A GATEKEEPER FOR FAIR LINKED DATA GENERATION Retrieve non-FAIR (processed) data Analyse the retrieved data  ... 
doi:10.6084/m9.figshare.10028333 fatcat:rcua354vubgk5ctzo7jpv66o5q

FAIRplus: D3.3 Report on IMI projects for data types and current technical solutions

Tony Burdett, Mélanie Courtot, Fuqi Xu, Nick Juty, Jolanda Strubel, Wei Gu, Danielle Welter, Karsten Quast, Dorothy Reilly
2021 Zenodo  
The process for creating FAIRplus technical solutions is highly collaborative, bringing domain experts and FAIR experts together, but is manually intensive.  ...  In this report, we describe the FAIRplus approach to the creation of technical FAIRification solutions.  ...  Creation of Tailored FAIRification Processes Given identified competency questions and a resulting desired state for each project, a "tailored FAIRification Process'' for each IMI project data type is  ... 
doi:10.5281/zenodo.4428720 fatcat:s34gvhki2naulovkms7gyaqiru

Security and Privacy when Applying FAIR Principles to Genomic Information [chapter]

Jaime Delgado, Silvia Llorente
2020 Studies in Health Technology and Informatics  
In the FAIRification process, there is a need both for de-identification of data and for license attribution.  ...  Making data Findable, Accessible, Interoperable and Reusable (FAIR) is a good approach when data needs to be shared. However, security and privacy are still critical aspects.  ...  Part of this work is also supported by the FAIR4Health project (Grant agreement 824666, European Commission) through EFMI (European Federation for Medical Informatics).  ... 
doi:10.3233/shti200690 pmid:33227736 fatcat:szkzeuxi7jbdboz7dl3eylbaky

Data Shepherding in Nanotechnology. The Initiation

Irini Furxhi, Athanasios Arvanitis, Finbarr Murphy, Anna Costa, Magda Blosi
2021 Nanomaterials  
We briefly describe the general DMP requirements, emphasizing that the initial steps in the direction towards data FAIRification must be conceptualized and visualized in a systematic way.  ...  We demonstrate the use of a generic questionnaire to capture primary data and metadata description from our consortium (data creators/experimentalists and data analysts/modelers).  ...  Papadiamantis of NanoCommons for helping with the design of the initial dataset template and the Transnational Access Activities in general of the Horizon 2020 e-infrastructure project NanoCommons (Grant  ... 
doi:10.3390/nano11061520 fatcat:dkpseuaxerg3pp26zo377sf7ue

FAIR principles for digital resources

Julián Garrido
2022 Zenodo  
FAIR principles for digital resources. Description of the FAIR principles and the FAIR principles for research software.  ...  the FAIRification process.  ...  the FAIRification process.  ... 
doi:10.5281/zenodo.6417254 fatcat:i36duek5lbctvmxrpbkmvihq5y

The de novo FAIRification process of a registry for vascular anomalies [article]

Karlijn H.J. Groenen, Annika Jacobsen, Martijn G. Kersloot, Bruna Vieira, Esther van Enckevort, Rajaram Kaliyaperumal, Derk L. Arts, Peter A.C. 't Hoen, Ronald Cornet, Marco Roos, Leo Schultze Kool
2020 medRxiv   pre-print
Here, we describe the five phases of this process in detail: i) pre-FAIRification, ii) facilitating FAIRification, iii) data collection, iv) generating FAIR data in real-time, and v) using FAIR data.  ...  implementation in the Electronic Data Capture (EDC) system for real-time, automatic data FAIRification.  ...  Acknowledgements We thank Maria Barea for her input as a patient advocate. We further acknowledge Pim Kamerling, Janet Vos and Loes van der Zanden for test reading our manuscript.  ... 
doi:10.1101/2020.12.12.20245951 fatcat:szangl5pvfhndltzksczkyord4

D2.5 FAIRplus FAIR Data Maturity Framework

Oya Beyan, Ibrahim Emam, Philippe Rocca-Serra, Susanna-Assunta Sansone, Nick Juty, Ebtisam Alharbi, Colin Wood, David Henderson, Tony Burdett, Melissa Konopko
2021 Zenodo  
These two maturity models fit into the updated FAIRplus FAIRification process; the Dataset Maturity Model supports the data requirements task while the Data Management Maturity Model supports the task  ...  One is a Data Management Maturity Model which focuses on ensuring that processes in place support the creation of new FAIR datasets, the second is the Dataset Maturity Model which is regarding the FAIRness  ...  F+S06 Data generated in early phases of research data workflow such as primary data is available for sharing. F+S07 Negative results are shared.  ... 
doi:10.5281/zenodo.5040591 fatcat:6khbai2q5nb67l44742nmzyhba

D8.2 Documentation Of The Tools For The Data Manipulation And Standard Conversions In The Rare-Disease Field

Annika Jacobsen, Mark Thompson, Marc Hanauer, Beltran Sergi, Alasdair Gray, Nick Juty, Friederike Ehrhart, Chris Evelo, Marco Roos
2018 Zenodo  
It describes a standard process to make rare disease data more FAIR compliant, services that support FAIRification, and a standardized process to make rare disease genome data comparable.  ...  Seven steps are defined in the FAIRification process: (1) define driving user question(s) for scoping and testing; (2) analyse source data for planning the conversion towards FAIR data; (3) define the  ...  The 7-step FAIRification process, tools and expertise Workflow A workflow describing the FAIRification process of rare disease resources can be seen in Figure 1 .  ... 
doi:10.5281/zenodo.1452467 fatcat:ghvy73winfgfxaxvt2ccdn7oim

Lessons from a tool of FAIR literacy based on key assessment criteria

Romain David, Mohamed Yahia, Mogens Thomsen, Alison Specht, Cambon-Thomsen, SHARC
2019 Zenodo  
This poster presents the design and assessment of a tool developed as part of the RDA-SHARC IG work based on key works (notably from FORCE 11*; EC Working group on Rewards under Open science*; GO FAIR*  ...  initiative) to get a FAIR compliance assessment either by evaluators or by researchers themselves.  ...  Acknowledgements: This work was partly supported by the Belmont-Forum and ANR (Parsec project)  ... 
doi:10.5281/zenodo.3891973 fatcat:3hrai532f5e5daphpmp5yax5ni
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