Integration of Bioimage and *Omics data resources

Fortmann-Grote, Carsten; Meireles, Mariana

doi:10.5281/zenodo.14792534

Published February 3, 2025 | Version v1

Poster Open

Integration of Bioimage and *Omics data resources

1. Max Planck Institute for Evolutionary Biology

This Poster was presented at the 2025 All Hands Meeting of the NFDI4BIOIMAGE Consortium. It presents the current state of data integration activities at the MPI for Evolutionary Biology. Various data and metadata resources such as the internal image data repository OMERO and the Electronic Lab Notebook System OpenBIS are converted into a RDF Knowledge Graph utilizing a R2RML mapping scheme based on the Ontop-VKG framework. The materialized Knowledge Graph is then served via the QLever SPARQL endpoint and user interface. A graphical query editor (SPARNatural) assists users with no SPARQL knowledge in constructing their queries by selecting triple elements from dropdown menus and other widgets. We also present a benchmark comparison of query response times on 10 selected SPARQL queries run against three different endpoint/triplestore implementations.

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Deutsche Forschungsgemeinschaft
National Research Data Infrastructure NFDI 46/1 – 501864659

Submitted: 2025-02-05

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NFDI4BIOIMAGE All Hands Meeting (NFDI4BI-AHM), Düsseldorf, Germany, 4-6 February 2025

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Created: February 3, 2025
Modified: February 4, 2025

Integration of Bioimage and *Omics data resources

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Integration of Bioimage and *Omics data resources

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