I just wrote about the Crunchbag.com article on how to remotely control your bittorrent downloads. Whilst I have mentioned using Azureus with web interface plug-in as my current method of accessing downloads remotely, here is another way of doing it but by using Transmission, another .
Check out the two web-based solutions and see which one is for you. Personally, I'd stick with my setup – easier to install and configure and no need for a LAMP stack. :)