ISCB NGS 2017: Accessing structural variation and population genomics data in Ensembl

Date:

  Wednesday 5 April 2017

Venue: 

Centre for Genomic Regulation - C/ Dr. Aiguader, 88 PRBB Building, 08003,  Barcelona,  Barcelona, Spain

Participation: 

First come, first served

Registration fee: 

50 Euros

Registration closed

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Dates additional information: 

The ISCB NGS conference runs from Monday 3rd- Wednesday 5th April 2017. This Ensembl workshop will take place at 10am on Wednesday 5th April. Registration for this workshop is required as part of registration for the ISCB NGS conference itself as there are limited spaces available. https://www.iscb.org/ngs2017-workshops-tutorials

Course Overview

The Ensembl genome browser (www.ensembl.org) provides visualisation and analysis of integrated genomic data, including genes, variants, comparative genomics and gene regulation, for over 70 species [1].

In this workshop, participants will learn about the structural variation and population genomics data in Ensembl and how to access these data using the Ensembl genome browser. A series of short demonstrations and exercises will allow participants to retrieve this data from Ensembl and think about how this data might be informative for their own research.

Participants will also learn how to upload their own data to view in the Ensembl genome browser alongside the publically available data, and how to analyse the consequences of sets of variants using the Variant Effect Predictor (VEP).

[1] Aken BL et al. Ensembl 2017. Nucleic Acids Res 45(D1):D635–D642.

Audience

This is an introductory workshop and is aimed at new and intermediate Ensembl users from the wet-lab, bioinformatics and medical communities.

Learning outcomes

• Gain confidence to explore structural variation and population genomics data in Ensembl, and to export these data.
• Explore transcript haplotype and linkage disequilibrium data in Ensembl.
• Use the Variant Effect Predictor (VEP) to analyse the consequences of variants.
• Learn how to upload custom sequencing and variation data to the Ensembl browser.

Programme

Morning: Session 1 - exploring structural variation and poplation genomics data using the Ensembl genome browser

Afternoon: Session 2 - analysing your own data using the Ensembl genome browser and the Variant Effect Predictor (VEP)