Wayne Manor, the Batcave, and Arkham Asylum
From LEGO Batman Wiki
The Batcave on Nintendo D.S. is where you access the Hero levels, buy stuff from the batcomputer, look at watch story clips, and look at Joker Cards and Minikit Models. Arkham Asylum is where you access Villain levels. This is also where you can defeat innocent people, sometimes not innocent walking by. Wayne Manor is simply a way to get LEGO Studs.