Preview is locking me out of my own PDFs, saying I don't have permission to view them even though I do

I've only noticed this since the software update (10.7.1), but I've got a big problem with preview at the moment. I'm trying to open some PDFs (journal articles) saved on my MacBook Pro, which I've previously had no trouble opening, but all I get is an error message saying:
"The file couldn’t be opened because you don’t have permission to view it. To view or change permissions, select the item in the Finder and choose File > Get Info."
I then go to get info for the file, and see that I DO have read and write permission for the file. But it still won't let me open it.
I'm trying to write my Masters dissertation (due in in less than 2 weeks) and it is ESSENTIAL that I'm able to view these files to complete it. Needless to say this is making me very stressed out and frustrated! I'm almost certain they all worked before the 10.7.1 update, but can't be 100% sure.
Any guidance on this would be much appreciated.
Thanks,
George

Thanks for trying to help but this is a different issue - see my post for details. I'm pretty sure sandboxing is the cause: you can only access files via bookmarks etc if you have already explicitly opened them.
From: http://developer.apple.com/library/mac/#documentation/Security/Conceptual/AppSan dboxDesignGuide/AppSandboxInDepth/AppSandboxInDepth.html
"Your sandboxed app can access file system locations outside of its container in the following three ways:
At the specific direction of the user
By using entitlements for specific file-system locations (described in “Entitlements and System Resource Access”)
When the file system location is in certain directories that are world readable"

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