Can't load Lion because I don't have app store (and yes, I do have snow leopard fully updated)

I was running Lion and everything was fine. Then, the hard drive on my iMac died and I just had a new one installed. After that, I loaded snow leopard and then did a restore of all my files from time machine (I later found out that i should have just done a full restore from time machine and i didnt need to first install an operating system).  All of the apps that were updated through Lion dont work, including App Store, Safari, etc. -- they say: "You have Mac OS X 10.6.8.  The application requires Mac OS X 10.7 or later."  The problem is that the only way to upgrade to Lion is through the App Store, but everything i tried, including Software Update (which says I'm fully updated) doesnt work. I even deleted the Lion version of the App Store so i could try reinstalling the snow leopard version and that didnt work.  I also thought about eerasing the whole machine and doing a full restore but now for some reason all of my old backups are gone.

I understand the problem elifromnewyork is explaining. Unfortunately, I have a similar problem. Hard drive crashed>repaired it>restored with time machine backup>several apps are "circle slash" using my newly upgraded OSX 10.6.8. These apps include v1.2.2 App Store, v9.0.9 iMovie, v2.0 FaceTime, v7.1 Contacts, v6.0 Calendar, v1.0 Game Center, v1.0 Launchpad and a few others. iTunes v11.1.3 does not have the "circle slash", but it will not launch. I've tried:
1. Erasing the drive and loading from the Snow Leopard disk and doing a software update.
2. Erasing the drive and loading Snow Leopard, then doing a time machine restore, then a software update.
I have a full version of Drive Genius and have hammered the drive with every Drive Genius repair tool. Each repair says nothing is wrong or the action was concluded successfully. All I can come up with is that the time machine back up is somehow incomplete, or I have a setting turned off somewhere that is affecting a proper restore/upgrade.

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