Ipad ios 4.2.1 update to 5.1.1 how do I back up books?

I am way overdue for an OS update and it says I will lose all my music, books etc on the ipad and there are purchases detected that have not been transferred. I synced but the books do not sync. How do I do this so I don't lose anything?

Use the Transfer Purchases function in iTunes prior to updating the device.
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