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Feature-Centric Visual Exploration of Genome Interaction Maps
Fritz Lekschas
July 09, 2018
Science
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1.6k
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
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
Cell Nucleus Contact Sequencing Heatmap 3D GENOME
Gene regulation: Enhancer-promoter Structural variation: Break points Cell dynamics: Differentiation
Cell cycle WHY CARE?
3 million × 3 million
PATTERNS
CHALLENGES • Size of the heatmap • Many called features
• No ground truth GOALS • Quality control • Pattern discovery • Pattern correlation CHALLENGES
None
None
None
None
None
Efficiency Show all insets Close to origin Minimize occlusion Show
all insets
Efficiency Show all insets Close to origin Minimize occlusion Close
to origin
Efficiency Show all insets Close to origin Minimize occlusion Minimize
occlusion
None
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
CONCLUSION Explore local features in spatial context Faster pattern search
Improved navigation
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