Lincoln Center's landmark foundation calls it an 'apparent prank.'
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A spokesperson for Lincoln Center says at around 1 p.m. someone put a water-based yellow dye pack into the fountain.
The water was shut off earlier so the fountain could be cleaned.
Lincoln Center's security team in investigating along with the NYPD.
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The fountain has made several high-profile cameos in movies such as Moonstruck, Ghostbusters and Black Swan.