Moon's Graden

How do I clean the mice's aquarium without destroying the nest that the
female made.  I leave the mice alone and they are very relaxed and all
This weekend I will have to clean the aquarium but almost all of the urine/
waste is in the lil box that the female made the nest in. Do I just tear it
out and let her make a new one?    Plus, I gave her strips of newspaper that
she chews and pulls into the box for nesting material.  can the newspaper
ink be bad for her or the pups?
        Thanks for any tips and for the previous help.