Syncing IPhone apps with ITunes or vice versa?

I have what is probably a very simple question but the more information that I read the more confused I'm getting. I use my IPhone to download apps and then I delete them if I decide I don't want them. I only use ITunes to "backup" my device. I have never downloaded an app to Itunes and I don't plan to; I do everything on the phone itself. It is my understanding that if I sync with Itunes I can first transfer purchases from the phone and then sync the phone with itunes. It is also my understanding that the end result is that the apps on my phone will match the apps in itunes. However, if I deleted 20 apps from my phone but not from Itunes, then syncing is just gonna put them right back on my phone, correct?
All I want to do is backup my phone in case something happens. I don't care what's accessible to me if I'm on ITunes because I never am. Can I just backup my phone and completely ignore the apps? If I were to lose my phone, I could just login to the app store and re-download them.
Sorry for the lengthy question but it seems I'm trying to do the opposite of what syncing is intended for. Is syncing synonymous with backing up?
Help please.

It is my understanding that if I sync with Itunes I can first transfer purchases from the phone and then sync the phone with itunes.
Before you connect your phone to your computer, make sure that autosync is disabled in iTunes/Edit/Preferences/Devices.
Make sure to have at least one contact and event listed on your computer, syncing to an empty address book will delete your contacts.
Right click on your device and choose "transfer purchases". All bought media and apps from iTunes will be copied to your iTunes library on your computer. Apps you deleted on your phone before will not be transferred, but iTunes will remember that you bought them, in case you want to download them again for free: Downloading past purchases from the App Store, iBookstore, and iTunes Store
Apps you deleted on the phone will not be synced back unless you select them again in the app pane and sync your phone after that.
Transferring your apps to your iTunes library is necessary, because the phone is not supposed to be a backup medium. You might consider that when iOS5 and iClound will be introduced, but until then it's a good idea to have a backup of your apps inside your iTunes library.
To back up manually without syncing do this:
Right click on your phone in the device list and choose "backup". A manual backup without a sync will be performed. See what's saved inside the backup here: iPhone and iPod touch: About backups

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Syncing IPhone apps with ITunes or vice versa?

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