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Bioinformatics Training on ENSEMBL, REST API Workshop 9th October 2018

Kwame Nkrumah University of Science and Technology (Main Library)

Kwame Nkrumah University of Science and Technology

Main Library

University Post Office, Private Mail Bag KNUST Kumasi-Ghana
Benjamin Moore - EMBL-EBI, UK (Trainer), Samson Salifu Pandam, KNUST, Gh (Program Coordinator)

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 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


Bioinformaticians and wet-lab biologists who can program in Python.

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 scripts to access data via the Ensembl REST API


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

The agenda of this meeting is empty