Doug Wilson has a short snippet on marking up his Bible:
“When I was first working through this, I bought a Bible I could mark up well. I then spent a few weeks looking up every passage in the Old Testament that is quoted in the New. Many Bibles will mark such cross-references in the New Testament, but it is rarely done in the Old. I highlighted every quotation from the Old Testament in the New Testament, and then I looked it up in the Old Testament and highlighted it there. Then I wrote in the Old Testament margin where in the New Testament this passage was quoted. When I was done, I had sloppily executed The Apostolic Study Bible. When I was reading in the Old Testament, I could immediately tell if Jesus, Peter, or Paul had ever discussed the passage I was currently wondering about. I would then look at what they said, and the striking thing is that they were consistently surprising. They oftensaid the passage I was reading was not about what I had thought it was” (Heaven Misplaced, p. 95).
I did the same thing to my favorite NAS back in the Nineties and it was and is an invaluable aid to study.