Federated SPARQL query performance evaluation for exploring disease model mouse: combining gene expression, orthology, and disease knowledge graphs.

ABSTRACT:

Background

The RIKEN BRC develops and maintains the RIKEN BioResource MetaDatabase to help users explore appropriate target bioresources for their experiments and prepare precise and high-quality data infrastructures. The Swiss Institute of Bioinformatics develops two databases across multi-species for the study of gene expression and orthology: Bgee and Orthologous MAtrix (OMA, an orthology database).

Methods

This study combines the RIKEN BioResource data with Resource Description Framework (RDF) datasets from Bgee, a gene expression database, the OMA, the DisGeNET, a human gene-disease association, Mouse Genome Informatics (MGI), UniProt, and four disease ontologies in the RIKEN BioResource MetaDatabase. Our aim is to evaluate the distributed SPARQL query performance when

SUBMITTER: Kushida T 

PROVIDER: S-EPMC12082848 | biostudies-literature | 2025 May

REPOSITORIES: biostudies-literature