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Supports for imaging projects toward Open Science at AuBi platform


1. Introduction Hosted by the Clermont Auvergne Mesocenter [1], the Auvergne Bioinformatics (AuBi) platform is member of the French Institute of Bioinformatics (IFB) [2]. We aim at sharing expertise and knowledge in large-scale data analysis with computing and storage facilities for biology and health research laboratories located at Clermont Auvergne University (UCA). Among axis of interest is imaging for which OMERO [3] a tool for data visualization and metadata storage as well as a bio-analysis platform Galaxy [4] have been deployed. 2. A web portal to orchestrate the tools around the FAIR data With the recent advances towards Open Science, data flows, tools and workflow analysis need to be orchestrated in order to help scientists to navigate across projects and collaborate together. To initiate this structuration around the data projects and based on FAIR principles, we started working on a web portal accessible from the Mesocenter hub. This portal shall give access to several services : (1) a unique corresponding address to help scientists feeding Data Management Plan (DMP) and HAL publication referencing system leaded by University library ; (2) mature web services for meta-data and image storing system, as well as images workflow analysis ; (3) a high performance calculation and storage infrastructure provided by the Mesocenter. Our objective is to be able to link these tools through data projects. This is why we are working together with OpenLink team [5] to develop a service meeting our biologists and bioinformatics communities, the Mesocenter and UCA requirements. 3. Conclusion This Open Science project gives an opportunity for laboratories associated with AuBi platform to get involved in national IFB projects such as MuDiS4LS. This is the case for iGReD [6] and i ts confocal microscopy facility CLIC (CLermont Imagerie Confocal) by contributing to the implementation Study for the elaboration of the structure DMP dedicated to imaging. This is challenging laboratories with imaging projects to mutualize storage resources like the storage server bought in 2021 all together with four Mixed Research Units : GDEC, iGReD, PIAF and UNH [6]. This project is initiated on imaging data and once on track, other data types will be orchestrated and linked together. References [1] [2] [3] [4] Afgan E. et al. The Galaxy platform for accessible, reproducible and collaborative biomedical analyses : 2018 update. 46(W1) : W537-W544, 2018. [5] [6]
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hal-03716079 , version 1 (07-07-2022)


  • HAL Id : hal-03716079 , version 1


Mateo Hiriart, David Grimbichler, Laurent Bouri, Pierre Pouchin, Sophie Desset, et al.. Supports for imaging projects toward Open Science at AuBi platform. JOBIM, Jul 2022, Rennes, France. ⟨hal-03716079⟩
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