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I guess the way I interpret "that's a whole 'nother project" is that curing herpes (or HIV for that matter), is not simple and straightforward because of the facts he mentioned. The notion that he's working on a simpler, more accessible type of herpes is in-line with this thinking. He states very plainly in the beginning "we do not work in cells as far as we know", which means that he can't penetrate the Herpes hiding in nerve cells (or HIV hiding in T-cells). I think I'm giving a very fair interpretation of what he said.