Interesting ideas, however it still sounds like you're tackling knowledge as if it's a fixed point in time. That's good to do when you're starting to build your knowledge base, but there's a stage of understanding beyond that which I'm trying to define and quantify.
As a knowledge manager, one of my biggest issues is the temporal nature of knowledge and conveying the cyclical nature of inputs and outputs to people. The "clean" process is often the exception in the real world, and short circuiting often occurs throughout the knowledge development process.
I don't think it really becomes apparent until you've been looking at the same knowledge for a while and start to see there's a pattern above the pattern. Changes in one part of the graph seem to be connected to changes in another part of the graph.
I'm searching for a way to visualize this extra dimension of data. I don't know if graph edges are complex enough to show the dimensionality of the change.
Perhaps a simple time-lapse overview of a graph would provide what I'm looking for. Or maybe there's a temporal relational layer that sits above topics and resources. I'm not sure.
edit: Hmm. A hypergraph seems like a relevant analogy.
https://en.wikipedia.org/wiki/Hypergraph