How do I get apps from my iPhone to iTunes?

My iTunes account has 20 apps.  My phone has 40.  When I select Sync in iTunes on the Apps tab it says that all apps on my iPhone will be replaced with apps in my iTunes account.  How do I get the 40 apps on my phone into iTunes?  Thanks in advance.

Downloading (using iOS or computer) past purchases from the App Store, iBookstore, and iTunes Store - http://support.apple.com/kb/ht2519 - enabled with iTunes 10.3 and newer; not all media formats are available in all countries (see: iTunes in the Cloud and iTunes Match Availability by Country - http://support.apple.com/kb/HT5085); apps, books (not audiobooks), music, t.v. shows, and movies (some - not all studios have permitted this).  Downloading previously purchased movies and TV shows requires iTunes 10.6 or later.  Discontinued items not available. For items not included in the iCloud list (e.g., ringtones, audiobooks), or locations or computer systems where iCloud is not (yet?) available, you only get one download per fee paid.  Apple notes it is your responsibility to back up your purchases.
Select the store on the left side of iTunes.
Click on Purchased on the right side under Quick Links.
You can re-download your available previous purchases.
alternatively:
iTunes Store: Transferring purchases from your iOS device or iPod to a computer - http://support.apple.com/kb/HT1848 - only purchases from iTunes Store

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