Ensembl REST API Workshop, DKFZ, 6 May 2020


  Wednesday 6 May 2020


Deutsches Krebsforschungszentrum (DKFZ) - German Cancer Research Centre (GCRC) - Deutsches Krebsforschungszentrum (DKFZ)Im Neuenheimer Feld 280, 69120,  Heidelberg, Germany

Application opens: 

Tuesday 11 February 2020

Application deadline: 

Tuesday 05 May 2020


First come, first served

Course Overview

The Ensembl project provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. This workshop is aimed at researchers and developers interested in exploring Ensembl beyond the website. The workshop covers how to use the Ensembl REST APIs, including understanding the major endpoints and how to write Python/Perl/R scripts to call them.

Feedback from previous courses:

"Wish I had taken the course long time ago. Didn't know before how good and powerful APIs are!" API workshop, EMBL-EBI, January 2016

"I really enjoyed the course, and the ENSEMBL API will become a very relevant part of my toolset." API workshop, Cambridge, December 2013

If you think you'd like to host a similar course at your institute, you can find out more on the Ensembl workshops page.


Bioinformaticians and wet-lab biologists who can program in Perl, Python or R.

Learning outcomes

After this course participants should be able to:

  • Synthesise the data types accessible through the Ensembl REST API
  • Understand the methods in the Ensembl REST API
  • Navigate the Ensembl REST API documentation to find available methods
  • Write Python/R/Perl scripts to access data via the Ensembl REST API


09:00-09:30    Overview of the Ensembl REST API
09:30-10:30    Accessing GET queries with the Ensembl REST API
10:30-11:00    Tea/Coffee Break    
11:00-12:30    Decoding json and chaining REST queries together
12:30-13.30    Lunch
13:30-14:30    Accessing POST queries with the Ensembl REST API
14:30-15:00    Rate limiting