The Human Genomic Melting Map

Liu F, Tøstesen E, Sundet JK, Jenssen TK, Bock C, et al. PLos Comput Biol. In press.

(doi:10.1371/journal.pcbi.0030093.eor)

How to add the melting map DAS server
The melting map is available for browsing using an earlier version of Ensembl containing the hg17 genome with annotations, as this is the genome release for which we have reported calculations. The present version will become available later. The process of adding the server to Ensembl is described step-by-step below.

The February 2006 Version 37 of Ensembl is the one needed for browsing the melting map, and the link for this can be found in the Ensembl Archives, or alternatively by clicking this link:
http://feb2006.archive.ensembl.org/Homo_sapiens/index.html

• Click the desired chromosome, or enter the coordinates directly on this page. Clicking the chromosome figure will produce the MapView page:

• Click the desired location on a chromosome or enter the coordinates. This will produce the ContigView page, containing the annotations in Ensembl and the melting map when it is later added:

• Click on the DAS Sources drop down menu button and then choose 'Manage Sources'.

• Click on "Add Data Source"

• Click on "Enter Server"

• In the field "Domain" add the server: http://pubgeneserver.uio.no:9000/das
• Click DNS list button

• Tick the option for ‘meltingmap’ and click the ‘Next’ button.
• The MS Internet Explorer browser may have problems displaying this part of Ensembl properly. If so, you may try FireFox.

• In the "DAS Wizard Step 2 of 3: Data appearance" window, just click the 'Next' button again.
  

In the "DAS Wizard Step 3 of 3: Display configuration" window, the user can specify a name for the DAS source, or just accept the defaults. Click the dropdown box called "Use score" and select "Histogram" to display the melting map properly.
Click 'Finish', then the it is very important to click the 'Close Window' 'button in the upper right corner of the window.  This will result in an automatic refresh of the ContigView page with the melting map displayed in the bottom of the 'Detail View' part of the page. Unfortunately, there is no way to improve the graphics further with Ensembls graphics handling ability with this version of Ensembl. The upcoming calculation of hg18 will remedy this to some extent.