5. Chromosome-Level View

5. Chromosome-Level View

Last modified by Lisa on 2012/08/23 13:39

Clicking on a feature tick or an association arc’s endpoint takes the user to the chromosome-level view of the corresponding region. Below the chromosome level view is a full-chromosome map that has a sliding window that can be resized and moved to zoom-in on specific regions of the chromosome.  Below is a chromosome-level view of Chromosome 17:

Regulome Explorer All Pairs - Chromosome-level View.png

Four separate panels in the chromosome-level view show information about the region highlighted in the full-chromosome map.

The Distal Intra-Chromosomal Associations panel shows associations between all non-proximal features on the chromosome. The lines representing associations are tiled vertically so that they are not obscured by each other. Hovering over the lines displays an Edge Card with information about the association. Clicking on a line pops up a Details Window.

The Proximal Feature Associations panel shows associations between features that are too close to each other to clearly represent with an arc. Hovering over a circle representing such an association displays an Edge Card with information about the association. Clicking on a line pops up a Details Window.

The Associations lacking Genomic Coordinates panel shows associations between molecular features that have genomic coordinates and unmapped features that do not have genomic coordinates. This corresponds to the association circles in the innermost gray band in the circular genome-level view. Hovering over a circle representing such an association displays an Edge Card with information about the association.  Clicking on a circle pops up a Details Window.

The Feature Locations panel displays color coded tiles for molecular features on the corresponding genomic positions. This corresponds to the outermost ring of tiles on the circular genome-level view. Hovering over a tile displays an Information Card that includes Feature, Source, and Location information as well as links to external public resources. Clicking a tick opens up the relevant page on the UCSC Genome Browser in a new window.

More information on the chromosome-level view can be found in this video tutorial.


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Created by Lisa on 2012/08/16 09:57

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