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How is atrophied muscle different than normal muscle in a chemical or biological way?

I am a writer with a question for a story I'm working on. In it, the character suffers from muscle atrophy due to spinal damage. So that I can portray this accurately, what would cause this type of ...
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What is topological crossover?

I read about "topological crossover?" in this paper 1, Table 1. What does this refer to? Thanks