There are many, many resources available for understanding modes and how to apply them. Here are a few things that have helped me out over the years:
Modes--book/cd, by Tom Kolb
Shred Guitar--book/cd by Paul Hanson
Modes, No More Mystery--dvd, by Frank Gambale
Practical Theory--book/cd, by Don Latarski
Hope that helps
Nick
http://www.nicklayton.com