Hi Rob,
I don't see why you couldn't most technologies like these rely on URLs (to distinguish which set of fields to look for) and the ability to identify the fields and data in them, which is rendered with traditional HTML tagging. Much like any screen scrape technology.
The only thing I'm not sure of is how the security/login aspect works, but if it works with applications like Salesforce, I'm sure Quick Base would operate similarly.
Both Quick Base and Informatica have free trials, so you could test it out and see.
-Sharon