SPARQLing Biology: a beginners course.

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Program

This workshop consists out of four parts:

• 30 minutes: Introduction to RDF and SPARQL (presentation)

• 25 minutes: Gene variants in Wikidata:

  • Understanding the Basics
  • Execute the query and retain results
  • Expand and change Query

• 25 minutes: Drug Targets in Wikidata

  • A more complicated query
  • Answering Biological Questions

• 10 minutes: Recap

  • Other Biological databases with RDF (presentation)
  • Update your SPARQL query here

An addendum is available, where we added:

• Answers to questions asked during the tutorial.
• More information on where to find Biological and Chemical properties (aka relationships) to expand your query.
• More detailed explanation of the SERVICE statement (since this is not directly part of SPARQL, but constructed by Wikidata for easier querying).

The material for this workshop is available under CC-BY-SA 4.0 International licence.