University of Cambridge Training

Bioinformatics: Ensembl API Workshop prerequisites 

Provided by: GSLS

Wed 3 Apr - Fri 5 Apr 2013  –  Department of Genetics, Room G12


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Description: This workshop is aimed at researchers and developers interested in exploring Ensembl beyond the website. The workshop covers the core, compara, variation and functional genomics (regulation) databases and APIs. Each database schema and API design will be presented in association with practical sessions in which the participants will write their own Perl scripts. Further information concerning course content is available. A course timetable is also available.

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

Target audience:

Duration: 3

Sessions:

Number of sessions: 3

Date Time Venue Trainer
Wed 3 Apr 09:30 - 17:30 Department of Genetics, Room G12 Kieron Taylor ,  Thomas Juettemann ,  Will McLaren ,  Miguel Pignatelli ,  Stephen Fitzgerald
Thu 4 Apr 09:30 - 17:30 Department of Genetics, Room G12 Kieron Taylor ,  Thomas Juettemann ,  Will McLaren ,  Miguel Pignatelli ,  Stephen Fitzgerald
Fri 5 Apr 09:30 - 17:30 Department of Genetics, Room G12 Kieron Taylor ,  Thomas Juettemann ,  Will McLaren ,  Miguel Pignatelli ,  Stephen Fitzgerald

Format: Presentations and practicals

Frequency: A number of times per year

Prerequisites:

  • A good grasp of programming concepts
  • Experience in coding in PERL
  • Familiarity with basic Molecular Biology and Genetics
  • Familiarity with the Ensembl would be advantageous

Aims:

  • To enable those with some experience in both Molecular Biology and Programming to use the Ensembl APIs competently

Topics covered (session 1):

  • a.m.: Core Database & API
  • p.m.: Core Database & API
  • p.m.: Functional Genomics (Regulation) Database & API

Topics covered (session 2):

  • a.m.: Functional Genomics (Regulation) Database & API
  • a.m.: Variation Database & API
  • p.m.: Variation Database & API

Topics covered (session 3):

  • a.m.: Compara Database & API - Gene Trees
  • a.m.: Compara Database & API - Alignments

Theme: SBS Practical Bioinformatics Training: Specialized Topics