TY  - JOUR
AU  - Jannasch, Anett
AU  - Tulok, Silke
AU  - Okafornta, Chukwuebuka William
AU  - Kugel, Thomas
AU  - Bortolomeazzi, Michele
AU  - Boissonnet, Tom
AU  - Schmidt, Christian
AU  - Vogelsang, Andy
AU  - Dittfeld, Claudia
AU  - Tugtekin, Sems-Malte
AU  - Matschke, Klaus
AU  - Paliulis, Leocadia
AU  - Thomas, Carola
AU  - Lindemann, Dirk
AU  - Fabig, Gunar
AU  - Müller-Reichert, Thomas
TI  - Setting up an institutional OMERO environment for bioimage data: Perspectives from both facility staff and users.
JO  - Journal of microscopy
VL  - 297
IS  - 1
SN  - 0022-2720
CY  - Oxford [u.a.]
PB  - Wiley-Blackwell
M1  - DKFZ-2024-01866
SP  - 105-119
PY  - 2025
N1  - 2025 Jan;297(1):105-119
AB  - 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.
KW  - FAIR principles (Other)
KW  - OMERO (Other)
KW  - bioimaging data (Other)
KW  - imaging facility (Other)
KW  - research data management (RDM) (Other)
LB  - PUB:(DE-HGF)16
C6  - pmid:39275979
DO  - DOI:10.1111/jmi.13360
UR  - https://inrepo02.dkfz.de/record/293308
ER  -