SLING Bioinformatics Roadshow, 18–20 May 2010
The Bioinformatics Roadshow is a collaborative effort that is funded by the European Commission as part of the SLING Integrating Activity. The Bioinformatics Roadshow is coordinated by the European Bioinformatics Institute – Europe’s main provider of biological data – and is run in collaboration with our SLING partners, the Swiss Institute of Bioinformatics (SIB), the European Patent Office and the BRENDA project.
The course will provide hands-on training on some of the bioinformatics tools and databases developed by EBI. We will concentrate especially on various EBI datasources for functional genomics.
Day 1 will concentrate on human functional genomics using Ensembl and ArrayExpress
Day 2 will concentrate on microbe and plant genomics using Ensembl Genomes and Biomart
Day 3 will concentrate on protein structures using PDBe
Days are largely independent and you can register for one or more days as you wish.
A brief overview on subjects covered in each session:
Ensembl Functional Genomics:
How the Ensembl project annotates functional genomics / regulatory data
How to browse and retrieve functional genomics / regulatory data in Ensembl
About our future plans with regard to the annotation of functional genomics / regulatory data
- Mapping of microarray probes
Note: these data are for the largest part only available for human.
- How to browse and retrieve data from the ArrayExpress public repository of transcriptomics data
- How to submit data to ArrayExpress
How to navigate Ensembl Genomes and retrieve information.
To understand the fundamentals of protein structures - tertiary and quaternary structures and structure quality.
To learn how to search, retrieve, visualise and analyse structures and their bound inhibitor, or drug molecule environments.
To analyse similar structures, small structural motifs and similar interfaces.
18 th May
09:30-10:00 Registration & coffee
10:00-11:00 Ensembl Functional Genomics presentation and demo
11:30-12:30 Ensembl Functional Genomics hands-on
12:30-13:30 Lunch break
13:30-15:00 Array Express
15:00-15:30 Tea break
15:30-17:00 Array Express
09:00-09:30 Registration & coffee
09:30-11:00 Introduction to Ensembl Genomes (Browser hands on example (Protists or plants)
12:30-13:30 Lunch break
14:30-15:00 Tea break
15:00-16:30 Comparative Genomics
12:15-13:00 Lunch break
14:30-14:45 Tea break
Ari-Matti Saren (09-457 2282, Ari-Matti.Saren [at] csc.fi)