VectorBase

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VectorBase

• Seth Redmond
• Imperial College, London
• seth.redmond_at_imperial.ac.uk

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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 BRCs funded to support
  large-scale sequencing projects

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COMP ANNOT
EST ANNOT
MAN ANNOT
PROBE ALIGNS
HOSTING INTEGRATION
MAN ANNOT
PROT ANNOT
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CEGG
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APOLLO
CEGG
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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

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Permanent Servers

• A Gambiae
• Manual annotation
• VectorBase manual
• CEGG Immunity set
• Comp annotation
• AnoEST Clusters
• ReAnoCDS
• Transposons

• A.Aegypti
• Comp Annotation
• AedEST Clusters

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APOLLO
CEGG
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APOLLO
CEGG
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DAS server
APOLLO
DAS client
DAS server
CEGG
DAS server
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DAS requests

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

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• 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