EMBL-EBI: Ensembl Variant Effect Predictor (VEP)

BeginnersPrerequisitesNew

This interactive workshop offers participants hands-on experience in the use of the Ensembl VEP to annotate genetic variants with the effects they have on Ensembl genes, and the known information about co-located variants. We will also look at known genes and variants, including the types of data available and where they come from.

Also note: This event is part of a series of short introductions focusing on EMBL-EBI resources. If you want to learn more about these separate training events, see the Related Courses section below.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.

• This workshop is aimed at those who want to explore genetic variation data.
• Graduate students, Postdocs and Staff members from the University of Cambridge, Affiliated Institutions and other external Institutions or individuals
• Please be aware that these courses are only free for University of Cambridge students. All other participants will be charged a registration fee in some form. Registration fees and further details regarding the charging policy are available here.
• Further details regarding eligibility criteria are available here

• Basic computing skills
• No previous bioinformatics experience is required, but an undergraduate level understanding of biology would be an advantage

Number of sessions: 1

Bioinformatics, Data retrieval, Database search, Whole genome sequencing

After this course you should be able to:

• explore information about genes and their sequences
• explore population frequencies and phenotypes associated with known genetic variants
• analyse your own variation data using the VEP.

During this course you will learn about:

• Ensembl and Ensembl genomes (http://www.ensembl.org/index.html)
• Access and explore a range of appropriate genetic variation resources
• Use these resources to retrieve relevant variant information resources

Presentations, demonstrations and practicals

• Free for University of Cambridge students
• £ 50/day for all University of Cambridge staff, including postdocs, and participants from Affiliated Institutions. Please note that these charges are recovered by us at the Institutional level
• It remains the participant's responsibility to acquire prior approval from the relevant group leader, line manager or budget holder to attend the course. It is requested that people booking only do so with the agreement of the relevant party as costs will be charged back to your Lab Head or Group Supervisor.
• £ 50/day for all other academic participants from external Institutions and charitable organizations. These charges must be paid at registration
• £ 100/day for all Industry participants. These charges must be paid at registration
• Further details regarding the charging policy are available here

0.5

A number of times a year

Related

• EMBL-EBI: An Introduction to Sequence Searching
• EMBL-EBI: Introduction to Chemogenomics Resources
• EMBL-EBI: Interactions & Pathways - IntAct & Complex Portal
• EMBL-EBI: Introduction to Interpro
• EMBL-EBI: Ontologies in life sciences - examples from GO and EFO
• EMBL-EBI: Network Analysis with Cytoscape (ONLINE LIVE TRAINING)
• EMBL-EBI: Transcriptomics Data and Tools (ONLINE LIVE TRAINING)
• Introduction to genome variation analysis using NGS
• Variant Analysis with GATK
• EMBL-EBI: Interactions & Pathways
• EMBL-EBI: European Variation Archive
• EMBL-EBI: Protein Sequence Databases with UniProt