Notes on the Visualization workshop at ETH Zurich on 03Jul07.
Key points for the (15-20 minute) presentation
Speaker: Benno (& Ghislain?)
- Biology has four dimensions... (genomic, organizational level, species, and time point) that
- Generate complexity
- Span a data space that is being filled with large-scale technology
- In contrast to classical (multidimensional) visualization, the dimensions are "odd"
- Genomic (across different genes, mRNAs, proteins): Graph character through interactions
- Organizational level (gene, pathway, network of pathways, cell, organ, individual,...): Corresponds to hierarchical "inclusion" relationship
- Species: Tree connection through evolution
- Time: Classical, linear; or unordered, if disjoint time points "conditions" are considered)
- The visualization problem in biology is to visualize data that is associated with these dimensions
- Examples of two-dimensional visualization
- Cytoscape
- Data model
- Some usage statistics ("Cytoscape is very popular with biologists")
- Maybe flash some examples of how Cytoscape is being used
- Cytoscape's current strength is network visualization (mostly the "Genomic" dimension is used for networks)
Mention extension: MatrixView
- Challenges
Here we can put our wishlist of general things that don't exist, but we'd like to see
Practicalities
- Ghislain and Benno will arrive late on July 2 (around 10pm), leave late on July 3 (around 8pm at Zurich airport)
- Hotel: Coronado