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Feature-Centric Visual Exploration of Genome Interaction Maps

Fritz Lekschas
July 09, 2018
Science
0
2.3k

Feature-Centric Visual Exploration of Genome Interaction Maps

Venue: ISMB 2018 in Chicago
Session: BioVis

Fritz Lekschas

July 09, 2018
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Transcript

  1. Feature-Centric Visual Exploration of Genome Interaction Maps Fritz Lekschas, PhD

    candidate
 Harvard University Benjamin Bach, Peter Kerpedjiev, Michael Behrisch, Nils Gehlenborg, and Hanspeter Pfister July 9th, 2018 ISMB 2018

  2. Cell Nucleus Contact Sequencing Heatmap 3D GENOME

  3. Gene regulation: Enhancer-promoter Structural variation: Break points Cell dynamics: Differentiation

    Cell cycle WHY CARE?

  4. 3 million × 3 million

  5. PATTERNS

  6. CHALLENGES • Size of the heatmap • Many called features

    • No ground truth GOALS • Quality control • Pattern discovery • Pattern correlation CHALLENGES
  7. None
  8. None
  9. None
  10. None
  11. None

  12. Efficiency Show all insets
 Close to origin Minimize occlusion Show

    all insets

  13. Efficiency Show all insets
 Close to origin Minimize occlusion Close

    to origin

  14. Efficiency Show all insets
 Close to origin Minimize occlusion Minimize

    occlusion
  15. None

  16. Performance comparison in pattern search on images and genome interaction

    maps User study: 18 participants and 6 domain experts Techniques: Results: faster pattern search
 more accurate pattern comparison
 easy-to-learn & easy-to-use EVALUATION

  17. CONCLUSION Explore local features in spatial context Faster pattern search

    Improved navigation

  18. Thank You! MORE INFORMATION scalable-insets.lekschas.de SOURCE CODE github.com/flekschas/higlass-scalable-insets CONTACT lekschas@seas.harvard.edu

    @flekschas lekschas.de POSTER: B-765