Fxphd.com offers online training in visual effects, motion graphics, and post production and includes After Effects courses. The next term has just begun and features AE classes by Tim Clapham, Mark Christiansen, and others. The classes are conducted via forums and video and resource downloads.
Enrollment includes term access through July 31 to the Trapcode Suite and Magic Bullet Looks. Classes also include Cinema 4D, Maya 2009 Unlimited, PFTrack 5, Fusion 5, and Nuke 5 through VPN (Virtual Private Network). Here's a video overview of the offerings: