How to run SPARQL queries on a subset of annotated PMC publications
Introduction
The SIBiLS SPARQL Endpoint is a web service that allows users to query biomedical literature data using SPARQL queries. This can be particularly useful for researchers and professionals in the biomedical field who are looking for specific information within large datasets of biomedical literature.
You will find materials and resources to test the OpenLink Virtuoso SPARQL protocol endpoint here.
Consult the Virtuoso Wiki page describing the service or the RDF Data Access and Data Management chapter of the Online Virtuoso Documentation.
There is also a rich Web based user interface with sample queries
To use it, you have to ask the site admin to install the iSPARQL package (isparql_dav.vad). The SIBiLS SPARQL Endpoint can be used in various ways depending on the specific needs of the researcher. Running SPARQL queries on a subset of annotated biodiversity publications in PMC is a specialized task that requires both knowledge of SPARQL and an understanding of the specific annotations and data structure used in PMC for biodiversity-related publications. Here's a step-by-step example to illustrate how you might approach this:
Endpoint Information
Consult the following links for available information defined on this endpoint:
What is SPARQL?
SPARQL is the W3C"s declarative query language for Graph Model Databases and Stores.
As is the case with SQL for relational databases and XQUERY for XML databases, SPARQL is an independent database and host operating system.
The development and evolution of this standard is overseen by the SPARQL Working Group within W3C. While parts of the language are still in active development, it is fully documented and publicly available.