Lost all applications after upgrading

Hi, I've just got a 3GS and was trying to sync with itunes to activate the phone
Here's what happened:
1. Did a back up with previous phone (3G) with iTunes.
2. Connect new 3GS with iTunes.
3. Sync/restore new 3GS
4. Update phone firmware to version 4.1
After doing the above and restarting, everything else is ok (restored correctly) except for all my applications. They are all gone now. Can anyone help me out here? any steps that i missed out and is there anything that i can do to restore all the applications?
Thanks

I have the same problem, except I realised I haven't lost all my applications but there's a blank page between original applications and bought applications, so it looked like they weren't there.
I can't work out a way of moving everything across to the left and getting rid of the blank page though.
Anyone with any ideas?

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