Will re-syncing iPhone to a new iTunes installation delete app data?

As per topic above. Recently reformatted my computer before I was able to do any backups (Just couldn't get into Windows).
Now I have re-installed everything and have synced my iPhone with a new iTunes library, but I have not synced my apps as I am scared that whatever data on the apps on my iPhone will be deleted.
Will this happen?

Basically wjosten's advice worked for me. I had wiped my MBP and installed Snow Leopard but forgot to make a backup of my itunes library. My main concern was the app data. I followed the instructions but chickened out at step 8 when iTunes warned me that it would erase the phone and ..." so I cancelled to just make sure I had everything right but it went ahead and made some weird sync anyway which left about 20% of my apps on the phone. So I restored from that backup I made at Step 6 and this time said ok to the sync at step 8.
But then I checked the sync apps checkbox but either didn't realise or something happened that meant all the apps were unchecked. Next thing I see is "removing {app name}" which started freaking me out. I'm not sure what to do from this point so I started checking all the apps and pressed apply. However, it may work better if you cancel the sync but even better would be to have all apps checked in the first place. In the end end though I didn't loose any data - even on the apps that I saw getting removed just moments earlier. WOOHOO!!
One side effect of this is that the apps are not in the same screen order as before... but that is either my fault or a very very small price to pay
So this method works but you have to have the guts to click ok
Also, be careful of your voice memos - I'm not sure if the instructions here cover those but they are not paid content so I would make sure you use something like http://www.macroplant.com/phonedisk/ to back them up.

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