The most common way would be to put a simple text file (XML/JSON would be better) on your webserver with the last build version. The application will then download this file, check the version and start the updater. A typical file would look like this:
Application Update File (A unique string that will let your application recognize the file type)
version: 1.0.0 (Latest Assembly Version)
download: http://yourserver.com/... (A link to the download version)
redirect: http://yournewserver.com/... (I used this field in case of a change in the server address.)
This would let the client know that they need to be looking at a new address.
You can also add other important details.