Genespring workgroup at NASC

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Genespring workgroup at NASC
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NASC Affymetrix service(http//affymetrix.arabido
psis.info)

• Affymetrix service started in 2002
• All Affymetrix arrays supported (all species,
  tiling, exon, SNP etc)
• Arabidopsis data automatically added to
  NASCarrays database and GEO, arrayexpress
• 350 (including ATH1, tomato), 450 (including
  Human, mouse)

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NASCarrays database

• MIAME compliant database
• Contains gt3000 hybridisations
• Associated analysis tools spot history, gene
  swinger, digital northern

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Genespring workgroup at NASC

• Allows easy access and analysis of all data in
  NASCarrays including .CEL files
• Whole experiments or sets of .CEL files can be
  downloaded and analysed
• Workgroup can be accessed in 3 ways

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Web based viewer(http//genespring.nottingham.ac.
uk)

• Used to view and download data in workgroup

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Web based viewer(http//genespring.nottingham.ac.
uk)

• View experiments, gene lists in a range of ways

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Web based viewer(http//genespring.nottingham.ac.
uk)

• Download experiments, gene lists etc

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Genespring viewer

• Stand alone application free to download
• Cut down version of Genespring GX
• Use to view data and perform simple analysis

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Genespring viewer

• Download installer from web viewer page

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Genespring viewer

• Multiple ways to view experiments

Box plot
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Genespring viewer

• Generate Venn diagrams of gene lists

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Genespring viewer

• Find similar genes

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Genespring GX

• Extensive visualisation and analysis tools

• Download any sample from workgroup and create new
  experiments

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Genespring GX

• Find differentially expressed genes

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Genespring GX

• Clustering (K means, gene trees, condition trees
  etc)

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Access to workgroup

• Access requires username and password
• Web viewer available at http//genespring.nottin
  gham.ac.uk
• Genespring viewer installer can be downloaded
  from web page
• Genespring GX either using your own licence or
  NASC licence (5 concurrent licences available)

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Current status

• Wokgroup has been installed
• Currently demonstration data sets available
• All data from NASCarrays available soon
• Access via web viewer, Genespring viewer and
  Genespring GX

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Training

• Initial training sessions will be run at
  Nottingham
• Introduction to Genespring GX
• Introduction to Genespring workgroup
• Training sessions can be arranged at other
  locations

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More information

• General information can be found at
  http//affymetrix.arabidopsis.info/workgroup.html
• Web viewer available from http//genespring.notti
  ngham.ac.uk
• For inquires and information about usernames
  contact genespring_at_arabidopsis.onfo