Mining Plant Variation Data

This workshop focuses on current developments in plant data resources at transPLANT partner sites, with a special reference to plant genomic variation data, re-sequencing projects and GWAS analyses. The workshop will provide a basic tutorial on SNP calling and analysis as well as hands-on introductions into partner resources and tools and explain how to obtain, search and use this data.

The workshop is targeted at (experimental) biologists and breeders who have the need to use these resources and concepts in everyday work to interpret own observations and plan new research objectives. No prior (informatics) knowledge or skills are required. Familiarity with using browser-based tools and/or Linux operating systems would be helpful however.

Date and Venue
Wednesday, July 1, 2015 - Friday, July 3, 2015
The European Bioinformatics Institute
United Kingdom
CB10 1SD
Google Maps

Syllabus, Tools and Resources
During this course you will learn about:

  • SNP calling, variation data, and GWAS
  • Tools: Introgression Browser, polymarker, and VCF viewer
  • Resources: Ensembl Plants, and GMI GWAS resources

Learning Objectives
After this course you should be able to:

  • Access plant variation data from public resources.
  • Use appropriate tools to analyse variation.
  • Explore Arabidopsis thaliana GWAS data.

For more details, including the programme, see

To apply for this course please register here.

Please note if your application is successful you will need to pay a registration fee of £105.

The registration fee of £105 covers the following:

  • Accommodation for 2 nights at The Wellcome Trust Conference Centre.
  • All meals and refreshment breaks during the course programme.
  • A course dinner in Cambridge on Thursday 2nd July 2015.
  • Course materials.
  • Use of a computer in the EMBL-EBI IT Training Room throughout the course.
  • Transfer to Cambridge City station at the end of the course.

There will be a maximum of 25 participants on this course and registration is dependent on selection after successful completion of the application process.

Upon completing the application questions (Items marked * are mandatory) please remember to read the additional information section at the bottom of the page. Only applicants with a complete registration will be considered for the course - incomplete registrations will not be processed.

Applications must be submitted by midnight (GMT) on Sunday 19th April 2015.

Paul Kersey, EMBL-EBI, UK
Manuel Spannagl, MIPS, Germany
Dan Bolser, EMBL-EBI, UK
Ricardo Ramirez, TGAC, UK



European Bioinformatics Institute, CB10 1SD, United Kingdom


Wed, 01/07/2015 to Fri, 03/07/2015


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