Training

EMBL-EBI will be presenting a workshop at PAG Asia entitled: Genome annotation resources at the EBI.

Abstract:

The European Bioinformatics Institute exists to deliver freely available data and bioinformatics services to the scientific community to promote scientific progress and also to offer advanced bioinformatics training to scientists at all levels, from PhD students to independent investigators. The EBI provides a pipeline of tools and services to support the assembly and annotation of new genomes, in addition to facilitating the deposition of new knowledge into the public domain at the time of publication. The Ensembl project (www.ensembl.org ) seeks to enable genomic science by providing high quality, integrated annotation on chordate and selected eukaryotic genomes. Ensembl Genomes (www.ensemblgenomes.org ) consists of five sub-portals (for bacteria, protists, fungi, plants and invertebrate metazoa) designed to complement the genomes available in Ensembl. InterProScan is a widely used tool which allows the classification of a proteome into protein families, which recognizes biologically relevant protein domains, binding and active sites and links to the underlying InterPro database (www.ebi.ac.uk/interpro) to provide more detailed annotation. Where possible, each InterPro entry has been mapped to one or more Gene Ontology terms (www.geneontology.org), and these terms can then be automatically propagated onto the genome, allowing a functional classification using a GO Slim. Additional information can be transferred from related entries in well studied model organisms manually annotated in the UniProtKB protein sequence database (www.uniprot.org). Finally, genes (or proteins) can be mapped to pathways using the Reactome curated knowledgebase of biological pathways (www.reactome.org) giving additional information as to the biological processes central to the organism. Through talks and demonstrations, this workshop will introduce the users to the resources available at the EBI and finally, to Train Online (www.ebi.ac.uk/training/online/), a free, web-based learning resource for life scientists.

PAG Asia has grown out from the Plant and Animal Genome Conference that takes place in San Diego each year. PAG is designed to provide a forum on recent developments and future plans for plant and animal genome projects.

For the full PAG Asia programme, please see: http://intlpagasia.org/2013/