Try going to this guide right here http://www.feral-heart.com/smf/index.php?topic=26062.0, and see if that helps.
There's not a lot of reasons I can think of as to why you'd need to use white/black masks to make scrolling or glowing markings.
You can check up on my guide and let me know if you have any questions, but otherwise you should just be able to effectively layer things onto each other for the best results.
Scroll > Preset Tex > Glowing Stuff
Look under semi-transparency for the "fade out" dealio.
In some cases it may or may not be beneficial, depends on the rest of your code. Can just let me know there.
Check the my_presets > reference folder for the info on how the UV map works.