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bioRxiv · 10.1101/2025.06.26.661298

Navigating the Lipid Universe with LipidLibrarian: A Cross-Linked Database for Lipidomics Data Integration

Niedermaier, F.·Mechteridis, K.·Pelz, K.·Wuerf, V.·Koehler, N.·Pauling, J. K.
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Abstract

There are numerous public resources and guidelines available for lipidomics research, including standard nomenclatures, classification systems, and lipid databases. However, these resources are not always aligned with one another, making it difficult to find and compare information on the same lipid across different databases. To tackle these challenges we present LipidLibrarian, a lipid search engine that enables a combined search of all major lipid databases by aggregating the available information and presenting it in a unified manner. The three main sources of information that build the foundation of LipidLibrarian as a comprehensive search-engine are SwissLipids, LIPID MAPS and ALEX123. Furthermore, various secondary resources such as LION/web, LINEX, LipidLynxX, and Goslin were incorporated to enhance the results and conduct name and hierarchy conversions. LipidLibrarian is accessible via a user-friendly website, allowing the user to query lipids using their trivial names, shorthand notations, database identifiers, or their masses. Alternatively, LipidLibrarian can be accessed as a Python package for integration into high-throughput lipidomics pipelines. The output of a LipidLibrarian query is split into multiple categories, such as nomenclature, database identifiers, masses, adducts, fragments, ontology terms, and reactions. For each of these categories, LipidLi-brarian aggregates the results from all databases and provides the source from which each value originates. This enables the user to quickly assess if the databases contain differing or conflicting information. In summary, LipidLibrarian provides an effortless, comprehensive and automated search for lipid information, thereby accelerating the research workflow and making it a meaningful tool for the scientific community.

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Niedermaier, F., Mechteridis, K., Pelz, K., Wuerf, V., Koehler, N., Pauling, J. K.. 2025-06-28. Navigating the Lipid Universe with LipidLibrarian: A Cross-Linked Database for Lipidomics Data Integration. https://doi.org/10.1101/2025.06.26.661298

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