View the High Density (HD) search results

After you submit an HD-CGH or HD-ChIP probe search, and eArray finishes it, you can view the results.

  1. Click the Workspace tab.

  2. Set the application type to CGH or ChIP.

  3. Click the Probe tab.

    The Probe Search page appears.

  4. Select HD Probe Search.

    The HD Probe Search page appears.

  5. If you want to view the results of an Advanced HD Probe Search, select Advanced HD Probe Search. eArray tracks the search results from standard and advanced HD searches separately.

    At the bottom of the page, the Search Results pane displays a list of the HD searches of the selected type that you have submitted, along with their status. Click an underlined column heading to sort the list of searches based on the contents of the column. Click the heading again to reverse the order of the sort.

  6. In the Actions column of the search results, next to the desired completed search, click View.

    An HD Search Results page appears, displaying the Summary results of the specific HD search.

  7. Click the appropriate tab at the top of the page to see the desired search result:

Result

Details

Summary Result

Lists the search criteria you provided when you requested the search, and a summary of the search results. These results reflect an overall view of the search results, and are not interval-, annotation-, or probe-specific.

More information about these results

Detail Result

Lists information similar to the Summary Result, except the results are broken down by genomic interval or annotation.

More information about these results

Probes List

Lists each of the probes retrieved by your HD probe search. The list contains the information shown for probes throughout eArray, such as the Probe ID, species, and associated annotations, but it also contains the Exon count and the Intragenic count of probes.

eArray displays up to 10,000 probes. If your probe list contains more than 10,000 probes, download them to your computer to view all of them. See What can be done with High Density (HD) search results.

Chromosome View

Shows the HD search results graphically. The genome appears at three levels of detail. A horizontal blue bar (the "cursor") appears in all panes, and reflects the center of the region that appears in the right pane.

  • The left pane shows all of the chromosomes of the species, and lets you select a chromosome for more detailed examination.

  • The center pane displays a magnified view of a chromosome you select. Marks in the area to the right of the chromosome reflect the locations of  the probes retrieved by the search.

  • The right pane displays a detailed view of a region

To view probes in a specific region of a chromosome:

  1. In the left pane, select the desired chromosome. You can only select the chromosome(s) associated with the probes retrieved by the search.
    The selected chromosome appears in the center pane with cytoband locations designated.

  2. To specify the range of locations to view within the selected chromosome, doing one or more of the following:

    • In the center pane, in the area to the right of the chromosome, drag the pointer vertically.
      A dotted blue box encloses the selected region.

    • In the right pane, click zoom_in.gif to narrow or "zoom in" the range of locations.

    • In the right pane, click zoom_out.gif to expand or "zoom out" the range of locations.

    • In the right pane, click scroll_down.gif to scroll the view region downward on the chromosome.

    • In the right pane, click scroll_up.gif to scroll the view region upward on the chromosome.

    • Type location numbers in Start and Stop, then click Go.

The specified region appears within the dotted blue rectangle in the center pane. In the right pane, a more detailed view of the specified region appears, including the names of the returned probes.

  1. Click anywhere in the probe display areas of the center and right panes to shift the center of the selected region to a different chromosomal position.

From any of the probe search results, you can download the probes to your computer, create a new HD probe group with the probe search results, and start a new HD probe search.

See also

What is a High Density (HD) search?

Perform a High Density (HD) search

View the search criteria for HD searches