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Here is my result that follows your suggestions: The top overview: just some font size and color adjustment. The second layer: Changed background color, font color is darker than in first layer. Added a box shadow to the selected row in first layer and a gradient in the second layer. Also the highlight color is darker. The third layer: Same changes as ...
In my experience this is one of those places where shadow works great to show deeper layers. A slightly different font weight/color treatment would help as well.
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