Sebastian Beier (GCBN/ELIXIR-DE), Anne Fiebig (GCBN/ELIXIR-DE), Matthijs Brouwer (ELIXIR-NL), Martijn van Kaauwen (ELIXIR-NL), Cyril Pommier (ELIXIR-FR), Fuqi Xu (EBI BioSamples), Isuru Liyanage (EBI BioSamples), Sam Holt (EBI ENA), Baron Koylass (EBI EVA)
15th June 2021, 10:00 a.m. – 01:00 p.m.
21st June 2021, 10:00 a.m. – 01:00 p.m.
28th June 2021, 10:00 a.m. – 01:00 p.m.
Recent progress in sequencing technologies has produced several large-scale genotyping data sets for crops. The insights afforded by this data have been published in high profile scientific articles, but the underlying raw genotype data and the associated sample and population metadata have not been routinely submitted to appropriate archives. In this workshop we will present best practices on how to format the data and metadata to comply with modern guidelines and help make data resources more long-term stable. Descriptive metadata and the usage of common identifiers shared in different repository is the main tool for that. The course is motivated by the ELIXIR implementation study FONDUE (https://elixir-europe.org/about-us/commissioned-services/fondue) and structured in a mix of lectures about the three involved repositories (EBI BioSamples, EBI ENA, EBI EVA) and hands-on test submissions to these repositories. A dedicated time-slot is also allocated for trouble-shooting of own data sets.
During this three half-day event participants will learn how to overcome common mistakes during the submission of sample data to BioSamples, sequencing output to ENA and genotyping data to EVA.
The training course is designed not to be restrictive by the experience level of the participants. Beginners will learn how to submit data to the archives, while people with programmatic knowledge will be receive information of updated guidelines and requirements.
FAIR data, Genotyping, Phenotyping, Genomics, SNPs