This is a set of SPARQL examples usable on different OMERO related SPARQL endpoints or datasets. The examples are stored one query per file in project specific repositories in the examples folder.
Each SPARQL query is itself in a turtle file. We use the following ontologies for the basic concepts.
- ShACL for the relation to the text of the Select/Ask queries, and declaring prefixes
- RDFS for comments and labels as shown in the user interfaces, annotated with a language tag
- RDF for basic type relations
- schema.org for the target SPARQL endpoint and tagging relevant keywords
If you reuse any part of this work, please cite the GigaScience paper:
@misc{largecollectionsparqlquestionquery,
author = {Bolleman, Jerven and Emonet, Vincent and Altenhoff, Adrian and Bairoch, Amos and Blatter, Marie-Claude and Bridge, Alan and Duvaud, Severine and Gasteiger, Elisabeth and Kuznetsov, Dmitry and Moretti, Sebastien and Michel, Pierre-Andre and Morgat, Anne and Pagni, Marco and Redaschi, Nicole and Zahn-Zabal, Monique and Mendes de Farias, Tarcisio and Sima, Ana Claudia},
doi = {10.1093/gigascience/giaf045},
month = {10},
title = {A large collection of bioinformatics question-query pairs over federated knowledge graphs: methodology and applications},
url = {https://github.com/sib-swiss/sparql-examples-utils},
year = {2025}
}