Setting up an institutional OMERO environment for bioimage data: Perspectives from both facility staff and users.
FAIR principles
OMERO
bioimaging data
imaging facility
research data management (RDM)
Journal
Journal of microscopy
ISSN: 1365-2818
Titre abrégé: J Microsc
Pays: England
ID NLM: 0204522
Informations de publication
Date de publication:
14 Sep 2024
14 Sep 2024
Historique:
revised:
03
09
2024
received:
03
07
2024
accepted:
04
09
2024
medline:
14
9
2024
pubmed:
14
9
2024
entrez:
14
9
2024
Statut:
aheadofprint
Résumé
Modern bioimaging core facilities at research institutions are essential for managing and maintaining high-end instruments, providing training and support for researchers in experimental design, image acquisition and data analysis. An important task for these facilities is the professional management of complex multidimensional bioimaging data, which are often produced in large quantity and very different file formats. This article details the process that led to successfully implementing the OME Remote Objects system (OMERO) for bioimage-specific research data management (RDM) at the Core Facility Cellular Imaging (CFCI) at the Technische Universität Dresden (TU Dresden). Ensuring compliance with the FAIR (findable, accessible, interoperable, reusable) principles, we outline here the challenges that we faced in adapting data handling and storage to a new RDM system. These challenges included the introduction of a standardised group-specific naming convention, metadata curation with tagging and Key-Value pairs, and integration of existing image processing workflows. By sharing our experiences, this article aims to provide insights and recommendations for both individual researchers and educational institutions intending to implement OMERO as a management system for bioimaging data. We showcase how tailored decisions and structured approaches lead to successful outcomes in RDM practices.
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : Deutsche Forschungsgemeinschaft
ID : 258577783
Organisme : Deutsche Forschungsgemeinschaft
ID : 282354882
Organisme : Deutsche Forschungsgemeinschaft
ID : 462231789
Organisme : Deutsche Forschungsgemeinschaft
ID : 501864659
Organisme : Freistaat Sachsen
ID : 100367226
Informations de copyright
© 2024 The Author(s). Journal of Microscopy published by John Wiley & Sons Ltd on behalf of Royal Microscopical Society.
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