I'm not sure what version you are currently using, but in 5.x and higher, if you aren't using the free version you can set the plex to Outline View (
View > Outline). You can't set the default view for certain areas of your brain, or for specific brains, so whatever view you are using will carry over to the other brains. With that in mind, there are several ways to do what you want. Hope this gives you a few ideas. Create a second brain, using only the information specific to your paper from the first brain. First, select all the thoughts related to the paper in your primary brain (either using reports, ctrl+clicking thoughts, or ctrl+clicking gates to get all thoughts attached to that gate, or Edit > Crawl Brain and Modify Selection). Right click the selection box and choose Copy Selected Thoughts. Then Choose File > New Brain, and when the brain is created, right-click the plex and paste thoughts. Switch to Outline view and lay it all out the way you want. As a bonus, if you are using version 6.x (in Beta), you can create a hyperlink from the "Paper" Thought in your Primary brain to a Thought in the Paper brain. You can just click that thought and automatically switch to that brain. Keep all the information in your primary brain. You can just switch to Outline view, and build your outline below the "Paper" thought. If you are using the Pro version, you can either tag all thoughts related to the paper with a specific tag, or use a Type instead. When you are ready to work on the paper, switch to outline view and go to the Reports tool tab. Click the All dropdown and select either the tag or type you have assigned. This will list all those thoughts. Now click the Filter dropdown and choose Normal. This will restrict everything on the plex (and in a search) to only show that type or tag so you can focus.
Java SE 6