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VectorBase

VectorBase. Seth Redmond Imperial College, London seth.redmond@imperial.ac.uk. VectorBase. “ A Relational Bioinformatics Resource Center for Arthropod Vectors of Human pathogens ” Funded by NIAID (National Institute of Allergy & Infectious Diseases - US)

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VectorBase

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  1. VectorBase Seth Redmond Imperial College, London seth.redmond@imperial.ac.uk

  2. VectorBase “A Relational Bioinformatics Resource Center for Arthropod Vectors of Human pathogens” • Funded by NIAID (National Institute of Allergy & Infectious Diseases - US) • One of a set of BRC’s funded to support large-scale sequencing projects

  3. COMP ANNOT EST ANNOT MAN ANNOT PROBE ALIGNS HOSTING & INTEGRATION PROT ANNOT MAN ANNOT

  4. DAS server APOLLO DAS server DAS server DAS client DAS server DAS server CEGG

  5. APOLLO CEGG

  6. VB DAS use • e! DAS client • Permanent DAS servers: • Rapidly changing features • e.g. manual annotation • Low priority / low usage features • e.g. AnoEST clusters • ‘Temporary’ servers • Preliminary data • e.g. array mappings between genebuilds • Collaborative use

  7. A.Aegypti Comp Annotation AedEST Clusters Permanent Servers • A Gambiae • Manual annotation • VectorBase manual • CEGG Immunity set • Comp annotation • AnoEST Clusters • ReAnoCDS • Transposons

  8. APOLLO CEGG

  9. APOLLO CEGG

  10. DAS server APOLLO DAS client DAS server CEGG DAS server

  11. DAS requests… • Versioning • Old features / New assemblies • Nested Features • Sim to GFF3, refer to parent ID to allow construction of gene models

  12. Imperial Fotis Kafatos George Christophides Bob Maccallum EBI Ewan Birney Dan Lawson Martin Hammond Karyn Megy Harvard William Gelbart Susan Russo Kathy Campbell Notre Dame Frank Collins Rob Bruggner EO. Stinson Neil Lobo IMBB Kitsos Louis Pantelis Topalis

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