HiPiler: Visual Exploration Of Large Genome Interaction Matrices With Interactive Small Multiples

090f9e164337989b54dabd7fedfd39b4?s=47 Fritz Lekschas
October 05, 2017

HiPiler: Visual Exploration Of Large Genome Interaction Matrices With Interactive Small Multiples

From my talk at InfoVis at IEEE VIS 2017 in Phoenix.

090f9e164337989b54dabd7fedfd39b4?s=128

Fritz Lekschas

October 05, 2017
Tweet

Transcript

  1. 1.

    HiPiler Visual Exploration of Large Genome Interaction Matrices with Interactive

    Small Multiples Fritz Lekschas, Benjamin Bach, Peter Kerpedjiev, Nils Gehlenborg, and Hanspeter Pfister
  2. 4.

    > 10.000 pattern instances but small total size How can

    we explore and compare many local patterns in this very large matrix?
  3. 5.
  4. 6.

    Social Networks Fans, connectors, and cliques Computer Networks Bottlenecks and

    hubs Gene Networks Feed-forward loops Giga-pixel Images Pattern recognition
  5. 7.

    Structure of the Genome Acknowledgements: N. Abdennur, B. Alver, H.

    Belaghzal, A. van den Berg, J. Dekker, G. Fudenberg, J. Gibcus, A. Goloborodko, D. Gorkin, M. Imakaev, Y. Liu, L. Mirny, J. Nübler, P. Park, H. Strobelt, and S. Wang.
  6. 10.

    Challenges • Detected by algorithms • Occur frequently • "Noisy"

    results Goals • Quality assessment • Pattern stratification • Pattern correlation Points Blocks
  7. 11.

    • How do specific pattern or average pattern look? •

    How variant and noisy are detected pattern? • Are there subgroups among the pattern? • How are patterns related to other data attributes? • What does the patterns neighborhood look like?
  8. 12.

    TECHNIQUES? • Pan & Zoom
 Kerpedjiev et al.: HiGlass •

    Lenses / Multifocus
 Rao and Card: Table Lense 
 Elmquist et al.: Melange • Abstraction / Aggregation
 Dunne et al.: Motif Simplification 
 Elmquist et al.: ZAME • Small Multiples
 Bach et al.: Multipiles
  9. 19.
  10. 20.
  11. 33.

    User study with 5 domain experts: Evaluating usability and usefulness

    Snippet approach is useful: Average / variance assessment and parameter estimation Context matters: Coordination between the snippets and matrix is highly appreciated HiPiler is easy-to-use and useful: Domain experts ask for local installations Limitations: Fixed matrix ordering and fixed aspect ratio of snippets EVALUATION
  12. 35.