Need help with syncing apps

[Jusfer]

In preparation for upgrade to iOS5, I need to back up and sync. I see that my iTunes doesn't show all my apps on the phone, and when I want to sync the apps, I am getting a message that gives me the impression that the phone will be synced to the PC, not the other way round.

I want to keep my apps on the phone and want to keep them organized in folders as they are now. What do I need to do to sync it right?

As a side question: how do I transfer purchased items (apps) to the iTunes library? I am told I need to do that before upgrading.

Thank you!

 

[Jusfer]

transferring to library

I forgot to say that I know the "Transfer purchases from my iPhone" menu item under Files in iTunes.
When I click it, nothing happens except the capacity bar collapses the green apps bar and then reestablishes it in its old version. That's all that happens. Nothing gets transferred.

 

[jgaz]

could try "right" clicking on the name of you phone, under devices in the grey/blue left hand menu. Should have option to transfer purchases there.