A-G.C.10: SwissLipids2.0: Towards a Semantically Integrated Lipid Knowledge Resource
SwissLipids is a comprehensive reference knowledgebase for lipids and lipidomics, housing approximately 600,000 theoretically feasible lipid structures, generated computationally through SMILES enumeration using lipid classes and fatty acyl groups that are mapped to ChEBI and curated in Rhea and UniProtKB.
In this presentation we describe the development of SwissLipids v2.0, which aims at streamlining the underlying database architecture, enriching lipid annotation, and deepening integration with the broader biochemical knowledge ecosystem.
SwissLipids v2.0 exploits a new RDF data model for lipids, and the in-built mapping to ChEBI created during lipid structure enumeration, to source up-to-date annotations from resources using ChEBI through federated SPARQL queries.
This turns SwissLipids from a static resource into a lightweight, integrative layer continuously enriched by the ongoing curation efforts of UniProtKB/Swiss-Prot, Rhea, and other resources using ChEBI such as the GO, Reactome, and MetaboLights, and marks the transition of SwissLipids toward a scalable, FAIR, and fully integrated component of the biochemical data ecosystem.
Co-authors: Lucila Aimo, Teresa Neto, Nicole Redaschi, Alan Bridge
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