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Browsing the Human Genome - Hands-on Ensembl and Vega Browser Workshop (ESHG 2011 Satellite Meeting)

Time

Friday 27 May 2011, 09:30 - 17:00.

Location

VU University Amsterdam (exact location will be provided closer to the workshop date).

Registration

The workshop is for free, but as space is limited to 20 participants registration is necessary. To register, please send a mail to Bert Overduin.

Instructors

Bert Overduin
Vertebrate Genomics Team / Ensembl Helpdesk & Outreach
EMBL - European Bioinformatics Institute
Wellcome Trust Genome Campus
Hinxton, Cambridge, United Kingdom

Gaurab Mukherjee
Havana team
Wellcome Trust Sanger Institute
Wellcome Trust Genome Campus
Hinxton, Cambridge, United Kingdom

Description

The Ensembl project provides a comprehensive and integrated source of annotation of, mainly vertebrate, genome sequences. The Vega database is a central repository for high quality manual annotation of vertebrate finished genome sequence. This 1-day workshop offers participants the possibility of gaining hands-on experience in the use of both the Ensembl and the Vega genome browsers, but also provides them with the necessary background information. The workshop is a combination of presentations, demos and hands-on exercises and is primarily targeted at wetlab researchers.

Covered topics

The following topics will be covered during the workshop:

  • Searching and navigating the Ensembl and Vega websites
  • Ensembl and Vega gene annotation
  • Retrieving data using the BioMart data mining tool
  • Variation in Ensembl: sequence variants, structural variants, variant effect predictor, LRG

Schedule

09:00 - 09:30 Registration
09:30 - 11:00 Ensembl genome browser - Bert Overduin
11:00 - 11:15 Coffee break
11:15 - 12:45 Vega genome browser - Gaurab Mukherjee
12:45 - 13:45 Lunch break
13:45 - 15:15 BioMart - Bert Overduin
15:15 - 15:30 Coffee break
15:30 - 17:00 Variation - Bert Overduin

Prerequisites

The only prerequisite for this workshop is general knowledge of molecular biology / genetics and a familiarity with web browsers.

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