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VectorBase

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One of a set of BRC's funded to support large-scale sequencing projects. VectorBase ... APOLLO* CEGG. VectorBase. VB DAS use. e! DAS client. Permanent DAS servers: ... – PowerPoint PPT presentation

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Title: VectorBase


1
VectorBase
  • Seth Redmond
  • Imperial College, London
  • seth.redmond_at_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 BRCs funded to support
    large-scale sequencing projects

3
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4
COMP ANNOT
EST ANNOT
MAN ANNOT
PROBE ALIGNS
HOSTING INTEGRATION
MAN ANNOT
PROT ANNOT
5
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6
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7
CEGG
8
APOLLO
CEGG
9
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

10
Permanent Servers
  • A Gambiae
  • Manual annotation
  • VectorBase manual
  • CEGG Immunity set
  • Comp annotation
  • AnoEST Clusters
  • ReAnoCDS
  • Transposons
  • A.Aegypti
  • Comp Annotation
  • AedEST Clusters

11
APOLLO
CEGG
12
APOLLO
CEGG
13
DAS server
APOLLO
DAS client
DAS server
CEGG
DAS server
14
DAS requests
  • Versioning
  • Old features / New assemblies
  • Nested Features
  • Sim to GFF3, refer to parent ID to allow
    construction of gene models

15
  • 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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