Sungear Multifactor Visualization

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Sungear Multifactor Visualization

• Joint work with Rodrigo Gutiérrez, Manny Katari,
  Brad Paley, Chris Poultney, and Gloria Coruzzi

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Typical Genomic Questions

• Multiple experiments (multiple time points,
  multiple conditions), many Go categories, or
  other features of genes want to know when
  certain Go categories are highly represented.
• Many species, want to know which genes have
  presence in many species and perhaps which GO
  categories

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Computational Desires

• Simple, responsive interface
• Visualize lots of data
• Many ways to query
• Many different data representations

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Sungear Design

• Generalizes Venn diagrams to more than three
• Visual outline is an ellipse having anchors on
  borders and vessels in the interior.
• Each vessel points to associated anchors.
• Linked views to hierarchies, lists, and graphs,
  so can simultaneously update data depending on
  user queries (selection events).

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Sungear Principle

• Sungear is stupid
• Doesnt care which kind of data it is
  representing, though there is built-in support
  for genes (because of links to GO and to
  cytoscape).
• Basic Sungear representation could be used to
  describe anything from yachting gear to
  demographics.

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Seed Development Stages(an example)
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Demos

• Growth stages showing when genes are transcribed
  (N-reg AtGenExpSeedDev)
• Blast comparison of Arabidopsis against most
  fully sequenced organisms.
• Nitrogen, carbon, light, organ showing regulation
  -- relative expression (cnlo)
• Interspecies comparisons that might show which
  kinds of genes are missing in gymnosperms, for
  example (Vicogenta)

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Genes that respond to N in leaves and C in roots
form the largest group (cnlo)
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PII and other genes involved in N-metabolism are
among these 566
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HYPOTHESIS Most of the regulated genes are
involved in metabolism.
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this is not the case for other processes
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Genes that are regulated by N L together
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Gene networks of NL-responsive genes
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Conclusion

• If you have lots of data about some common entity
  (genes, people, goods, whatever) and several
  factors or experiments whose interaction you want
  to visualize, Sungear is for you.
• Still under development but works.