Working with Parasite Database Resources

This residential workshop aims to provide experimental biologists with hands-on experience in genomic-scale data analysis, including genome browsers and comparison tools, methods for data integration, and resources for sophisticated data mining. Examples and exercises will be drawn primarily from the EuPathDB.org and GeneDB.org resources and will include a variety of eukaryotic parasitic organisms including Apicomplexa (ie. Plasmodium and Toxoplasma) and kinetoplastida (ie. Trypanosoma and Leishmania). Applicants working on any protozoan parasite from these resources will benefit.

This course is taught as a collaborative effort between the Parasite Genomics Group (Wellcome Trust Sanger Institute, UK) and the Eukaryotic Pathogen Bioinformatics Resource Center (University of Georgia & University of Pennsylvania, US). The majority of this intensive programme will be based on hands-on exercises with lectures on genomics and bioinformatics techniques, in addition to daily keynote presentations by world-renowned parsitologists.
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Course programme
Visualisation of sequence features and next generation sequencing data using the Artemis genome browser and annotation tool
Genome browsing and comparative genomics (ACT, J/GBrowse, SynView)
Formulating complex biological queries in computationally accessible form
Web-based resources including the GeneDB.org and EuPathDB.org family of databases
Integrating functional genomics data (RNA-seq, ChIP-seq, ChIP-chip, microarrays, proteomics, etc) with genome sequence data
Theoretical aspects of genome re-sequencing
Querying genetic diversity on a genome-wide scale
Metabolic pathways and pathway analysis, and compounds
Working with next-generation sequence data (mapping, variant calling, etc)
An introduction to community curation tools
Special topics of particular interest to workshop participants* (*participants will be polled on material they would like to see discussed).

20 Oct - 25 Oct 2013
Cambridge
United Kingdom
meeting website