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Article

Your Spreadsheets Can Be FAIR: A Tool and FAIRification Workflow for the eNanoMapper Database

1
Department of Analytical Chemistry and Computer Chemistry, Faculty of Chemistry, University of Plovdiv, 24 Tsar Assen St, 4000 Plovdiv, Bulgaria
2
Ideaconsult Ltd., 4 Angel Kanchev St, 1000 Sofia, Bulgaria
3
Institute of Occupational Medicine, Research Avenue North, Riccarton, Edinburgh EH14 4AP, UK
*
Authors to whom correspondence should be addressed.
Nanomaterials 2020, 10(10), 1908; https://doi.org/10.3390/nano10101908
Received: 29 August 2020 / Revised: 17 September 2020 / Accepted: 20 September 2020 / Published: 24 September 2020
(This article belongs to the Special Issue From Nanoinformatics to Nanomaterials Risk Assessment and Governance)
The field of nanoinformatics is rapidly developing and provides data driven solutions in the area of nanomaterials (NM) safety. Safe by Design approaches are encouraged and promoted through regulatory initiatives and multiple scientific projects. Experimental data is at the core of nanoinformatics processing workflows for risk assessment. The nanosafety data is predominantly recorded in Excel spreadsheet files. Although the spreadsheets are quite convenient for the experimentalists, they also pose great challenges for the consequent processing into databases due to variability of the templates used, specific details provided by each laboratory and the need for proper metadata documentation and formatting. In this paper, we present a workflow to facilitate the conversion of spreadsheets into a FAIR (Findable, Accessible, Interoperable, and Reusable) database, with the pivotal aid of the NMDataParser tool, developed to streamline the mapping of the original file layout into the eNanoMapper semantic data model. The NMDataParser is an open source Java library and application, making use of a JSON configuration to define the mapping. We describe the JSON configuration syntax and the approaches applied for parsing different spreadsheet layouts used by the nanosafety community. Examples of using the NMDataParser tool in nanoinformatics workflows are given. Challenging cases are discussed and appropriate solutions are proposed. View Full-Text
Keywords: nanoparticle; Excel spreadsheet; eNanoMapper database; JSON; software parser; nanosafety; data; metadata; FAIR data nanoparticle; Excel spreadsheet; eNanoMapper database; JSON; software parser; nanosafety; data; metadata; FAIR data
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MDPI and ACS Style

Kochev, N.; Jeliazkova, N.; Paskaleva, V.; Tancheva, G.; Iliev, L.; Ritchie, P.; Jeliazkov, V. Your Spreadsheets Can Be FAIR: A Tool and FAIRification Workflow for the eNanoMapper Database. Nanomaterials 2020, 10, 1908. https://doi.org/10.3390/nano10101908

AMA Style

Kochev N, Jeliazkova N, Paskaleva V, Tancheva G, Iliev L, Ritchie P, Jeliazkov V. Your Spreadsheets Can Be FAIR: A Tool and FAIRification Workflow for the eNanoMapper Database. Nanomaterials. 2020; 10(10):1908. https://doi.org/10.3390/nano10101908

Chicago/Turabian Style

Kochev, Nikolay, Nina Jeliazkova, Vesselina Paskaleva, Gergana Tancheva, Luchesar Iliev, Peter Ritchie, and Vedrin Jeliazkov. 2020. "Your Spreadsheets Can Be FAIR: A Tool and FAIRification Workflow for the eNanoMapper Database" Nanomaterials 10, no. 10: 1908. https://doi.org/10.3390/nano10101908

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