SIDURI: from an integrative information system to a user-friendly portal for data analysis and visualisation dedicated to fermentation
Résumé
Global warming highlights a need to renew our dietary habits and develop sustainable, durable, safe and healthy foods. Fermentation has proven its potential to naturally enhance bio-preservation, functional capabilities or organoleptic qualities of various food matrices. Initiated in 2022, the project “Ferments du Futur” (FdF) aims to accelerate research and innovation in food systems, especially for fermented products. Each year, a call for research projects is launched to fund breakthrough development from public laboratories or companies on strategic topics for fermentation. The Migale bioinformatics facility (MaIAGE, INRAE, Jouy-en-Josas) manages the development of a data warehouse named Siduri to centralize relevant results produced during FdF projects and provide access to selected public data. Siduri is based on the existing ontology-driven information system OpenSILEX. Taking a step forward, Siduri will propose bioinformatics analyses and interactive visualizations of the results. To this end, a catalogue of recommended tools has been built based on bio.tools and the EDAM ontology, mainly for genomics data but it will be extended to other types such as omics, analytical chemistry or sensory data. Those tools will be accessible in a dedicated Galaxy instance linked to Siduri. This way, users could select dataset to analyse, launch workflows through the Galaxy API and then explore results via a user-friendly interface. The poster will present the advancements of Siduri development regarding the tool catalogue and pipeline execution. The Galaxy integration will be illustrated through some classical bioinformatics pipelines including read quality, bacterial genome assembly and annotation or genome-scale modelling.
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