Emerson, who starred as Ben Linus in the hit drama, explained that there are some positives to being recognised for a particular show.
"I'm now at peace," he told the Los Angeles Times. "There's a recognisability and a swelling of positivism in people who appreciate your work.
"And there's always a way to break that. The day will come when I go back to the stage and play something completely different."
However, Emerson admitted that he does not think his role in CBS's new show Person of Interest will completely stop the Lost association.
"I think when I came on Person of Interest, I thought that this would be a clean break, something completely different," he said. "And yet it does not seem like that's how it's going to be. One character is going to grow out of the other. It may take time for the outlines of something distinct and different to appear."
Emerson also revealed that he is still approached by fans who want him to explain the Lost finale.
"I had a man walk up to me and say, 'I have two minutes - explain to me the finale so I can stop thinking about it'," he said. "He had a hold of my arm, and I think he felt it was the least I could do for keeping him in a state of intellectual torment.
"I spun it out. I gave him an answer he didn't completely buy. But at least it was an answer."
Person of Interest will premiere on September 22 on CBS.
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Watch a preview of Person of Interest below: