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dc.contributor.authorBlack, Melissa
dc.contributor.authorLamothe, Lucie
dc.contributor.authorEldakroury, Hager
dc.contributor.authorKierkegaard, Mads
dc.contributor.authorPriya, Ankita
dc.contributor.authorMachinda, Anne
dc.contributor.authorSingh Khanduja, Uttam
dc.contributor.authorPatoliya, Drashti
dc.contributor.authorRathi, Rashika
dc.contributor.authorChe Nico, Tawah Peggy
dc.contributor.authorUmutesi, Gloria
dc.contributor.authorBlankenburg, Claudia
dc.contributor.authorOp, Anita
dc.contributor.authorChieke, Precious
dc.contributor.authorBabatunde, Omodolapo
dc.contributor.authorLaurie, Steve
dc.contributor.authorNeumann, Steffen
dc.contributor.authorSchwämmle, Veit
dc.contributor.authorKuzmin, Ivan
dc.contributor.authorHunter, Chris
dc.contributor.authorKarr, Jonathan
dc.contributor.authorIson, Jon
dc.contributor.authorGaignard, Alban
dc.contributor.authorBrancotte, Bryan
dc.contributor.authorMénager, Hervé
dc.contributor.authorKalaš, Matúš
dc.description.abstractEDAM [1] is a domain ontology of data analysis and data management in bio- and other sciences, and science-based applications. It comprises concepts related to analysis, modelling, optimisation, and data life-cycle. Targetting usability by diverse end users, the structure of EDAM is relatively simple, divided into 4 main sections: Topic Operation Data (incl. Identifier) Format EDAM is used in numerous resources, for example, Galaxy, Debian, or the ELIXIR Europe training portal TeSS. Thanks to the annotations with EDAM, computational tools, workflows, standards, data, and learning materials are easier to find, compare, choose, and integrate. EDAM contributes to open science by allowing semantic annotation of processed data, thus making the data more understandable, findable, and comparable. EDAM and its applications lower the barrier and effort for scientists and citizens alike, towards doing scientific research in a more open, reliable, and inclusive way. The main improvements in 2021 include: The addition of essential concepts of data management and open science Improved automated validation (CI) Improved contribution processes towards more inclusion and engagement with communities of scientific experts, software engineers, and volunteers Easier to contribute, and therefore new contributors and new collaborations. And welcoming more! News from the applications: Galaxy can now visualise the tools panel sorted by EDAM. The EDAM community brings together software engineers and science experts (academic, industrial, citizen), professionals and volunteers. It can be followed and contributed to via various channels. One option is GitHub, with dedicated repositories incl. edamontology and others. Other platforms for contributions to EDAM are especially the generic ontology browsers of the NCBO BioPortal (EDAM, EDAM Bioimaging [2]) and WebProtégé (EDAM, EDAM Bioimaging; free registration required also for viewing). The main communication channel is Gitter. Along with the ontology, the community has developed a number of tools that enhance user experience with EDAM: EDAM Browser [3] is a lightweight and fast web-based ontology browser that provides a number of user-oriented features such as aggregated search across various EDAM-annotated resources (e.g., TeSS), and suggesting changes to EDAM. EDAMmap is a tool for text mining EDAM concepts from articles. EDAM Popovers is a web-browser add-on/extension for showing details of EDAM concepts found in a website. Great e.g. for code and textual data on GitHub References: [1] Ison, J., Kalaš, M., Jonassen, I., et al. (2013). EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats. Bioinformatics, 29(10): 1325-1332. DOI: 10.1093/bioinformatics/btt113 [2] Matúš Kalaš, Laure Plantard, Joakim Lindblad, Martin Jones, Nataša Sladoje, Moritz A. Kirschmann, Anatole Chessel, Leandro Scholz, Fabienne Rössler, Laura Nicolás Sáenz, Estibaliz Gómez de Mariscal, John Bogovic, Alexandre Dufour, Xavier Heiligenstein, Dominic Waithe, Marie-Charlotte Domart, Matthia Karreman, Raf Van de Plas, Robert Haase, David Hörl, Lassi Paavolainen, Ivana Vrhovac Madunić, Dean Karaica, Arrate Muñoz-Barrutia, Paula Sampaio, Daniel Sage, Sebastian Munck, Ofra Golani, Josh Moore, Florian Levet, Jon Ison, Alban Gaignard, Hervé Ménager, Chong Zhang, Kota Miura, Julien Colombelli, Perrine Paul-Gilloteaux, and welcoming new contributors! (2020). EDAM-bioimaging: the ontology of bioimage informatics operations, topics, data, and formats (update 2020) [version 1; not peer reviewed]. F1000Research, 9(ELIXIR):162 (Poster) DOI: 10.7490/f1000research.1117826.1 [3] Brancotte, B., Blanchet, C. and Ménager, H. (2018). A reusable tree-based web-visualization to browse EDAM ontology, and contribute to it. J. Open Source Softw., 3(27): 698. DOI: 10.21105/joss.00698en_US
dc.rightsNavngivelse 4.0 Internasjonal*
dc.subjectOpen Scienceen_US
dc.subjectOpen Scienceen_US
dc.subjectHåndtering av forskningsdataen_US
dc.subjectResearch data managementen_US
dc.subjectLife Scienceen_US
dc.titleEDAM: the bioscientific data analysis ontology (update 2021) [version 1; not peer reviewed]en_US
dc.rights.holderCopyright 2021 The Author(s)en_US
dc.source.journalF1000 Researchen_US
dc.relation.projectNorges forskningsråd: 270068en_US
dc.subject.nsiVDP::Bioinformatikk: 475en_US
dc.subject.nsiVDP::Bioinformatics: 475en_US
dc.identifier.citationF1000 Research. 2021.en_US

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