MatrixDB 2024: New Features and Expanded Data on Extracellular Matrix Interactions
Author Information
Author(s): Samarasinghe Kasun, Kotlyar Max, Vallet Sylvain, Hayes Catherine, Naba Alexandra, Jurisica Igor, Lisacek Frédérique, Ricard-Blum Sylvie
Primary Institution: Swiss Institute of Bioinformatics
Conclusion
The new version of MatrixDB includes a two-fold increase in experimentally-supported interactions and improved tools for data access and analysis.
Supporting Evidence
- MatrixDB has been regularly updated since its creation in 2009.
- The new version includes more than twice the number of manually curated and experimentally-supported interactions.
- High-confidence predicted interactions were imported to increase the coverage of the ECM interactome.
- New transcriptomic and expanded proteomic datasets were imported to generate cell- and tissue-specific ECM networks.
Takeaway
MatrixDB is a database that helps scientists study how different proteins in our body interact with each other, and the new version has even more data and better tools to explore these interactions.
Methodology
The database was built using a NoSQL design and integrated data from various biological sources through an ETL process.
Limitations
The database does not include orthologous experimental protein-protein interactions inferred to human species.
Digital Object Identifier (DOI)
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