Missing all app data

I just upgraded to the 4S yesterday. They activated it at the store but didn't transfer any of my apps/data (my contacts, etc are synced with MobileMe). I plugged my phone into iTunes and it synced the apps, but not the layout or more importantly, the data. I've already manually redone the app organization, but now realize I'm still missing all my music, photos from the old phone, and all the data in my apps. How do I restore all of this on the new phone? The first time I plugged in the phone to iTunes, I wasn't given the option to restore from a backup, though I did back up the old phone before getting the new one. I would really appreciate any help. Thanks!
Cheers,
Jen

Ok - I figured out how to restore my phone from the backup of my 3GS, so my app data and photos are back in place, but none of my music transfered from the backup. Thoughts?

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