Course Overview
The Ensembl project at provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. This 1-day workshop offers participants the possibility of gaining hands-on experience in the use of the Ensembl genome browser but also provides them with the necessary background information. Our sister project at can also be covered if participants are working with bacteria, plants, fungi, protists or (invertebrate) metazoa.
Intended Audience
Wet-lab researchers and bioinformaticians
Keywords: Genetics, Genomics. Nucleic acids analysis
Skill level of training: Beginner
Language: English
Credential awarded: Letter of completion/attendance
Type of training: Blended/hybrid learning
Venue of the course: UCT Med-school, Anatomy Building, Health Teaching Lab 1
Dates for the course: 20 May 2019
Course organisers: Ben Moore, Nicola Mulder, Sumir Panji, Verena Ras
Participation: People who will be using or are using the Ensembl genome browser for their research, or would like to learn more about how to use the Ensembl browser. Selection will be done via an application process.
Course Sponsors: H3ABioNet and Ensembl
Course objectives

 Objectives: After this workshop participants should be able to:

  • view genomic regions and manipulate the view to add features they are interested in.
  • explore information about genes and their sequences, and gene data in bulk using BioMart.
  • analyse genomic variants and associated phenotypes and their own variation data using the VEP.
  • view homologous genes and genomic regions, functional elements involved in gene regulation and their activity in different cell types.

Classroom applications

Registration for classrooms opens: Thu, 01/01/1970
Registration for classrooms closes: Thu, 01/01/1970
Link to classroom application form:
Notification date for successful classrooms: Thu, 01/01/1970
Maximum number of participants that may be accepted per classroom will be capped at

Participant applications

Registration for participants opens: Mon, 15/04/2019
Registration for participants closes: Sun, 12/05/2019
Participant registration link:
Syllabus and Tools

Morning: Introduction to Ensembl and Ensembl genes. Viewing genes and locations in the browser. Data export with BioMart.

Afternoon: The afternoon sessions depend on the participants' interest. We can cover genetic variation, comparative genomics and gene regulation, depending on what you express an interest in when you register.



Course limitations
Training material availability

Training materials used for this course were not directly produced by H3ABioNet but may be accessed here: Please note, these materials may be governed by different sharing/re-use policies, and you are encouraged to follow the policies of the external providers regarding material re-use and/or sharing.