Backing up in-app data without storing the entire app on my mac

Hi there
Been wondering about this for a long time. When I backup my iPhone through itunes on my Mac, it asks me whether or not I want to backup the Apps as well. When I say yes, what itunes wants to do is store all my third-party apps on my computer, which takes up enormous hard drive space.
What I want itunes to do is back-up my unique in-app data (for example, Whatsapp's messages, or angry birds progress etc) without storing the actual app on my mac. I can download the app again on a restore through the app store; I just need my unique in-app data to be preserved and reinserted into the app when I download it through the app store.
Does itunes already do this? Any direction/confirmation would be nice.

Quit all applications.
Press and hold the option key and click the "Go" menu in the menu bar.
From the dropdown select Library.
Library > Mail > V2 > Mailboxes > Recovered messages
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Backing up in-app data without storing the entire app on my mac

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