Do you know Compendium?

I may take an example to explain why transclusion is important to me.
I’m a physicist. I read books, economy for example. These two domains are a priori separate fields. However, one may find some similarities. For example, many people claims that the concept of energy in physics is, in many aspects, like the currency in theoretical economy. I then would like to explore the connexions between these two fields. I would like to see how far can be pushed the comparison. Doing this, I may realize that it is just a simple analogy, nothing more. But I also may realize that, in fact, economics and physics are more connected than initially thought.
To do so, I map the two theories in separate sides. Relations between nodes are simple logical links. I can draw the transclusive relations from one side to another but it becomes rapidly unreadable. To overcome this issue, I need a map where I could draw/break the transclusive links. In this map, nodes “transclusively-related” should be displayed near each other.

Here is another example but at this time I had not realized I was asking for transclusive relationships in TinderBox.