Nissen is a surname. As a Danish surname it is a patronymic meaning "son of Nis" (Danish short form of Nicholas). Notable people with the surname include:
Georg Nikolaus von Nissen (1761–1826), Danish diplomat and writer, and author of one of the first biographies of Wolfgang Amadeus Mozart
Peter Norman Nissen (1871–1930), Canadian mining engineer
Hans-Hermann Nissen (1893-1980), German bass-baritone
Rudolph Nissen (1896–1981), German surgeon and inventor of the Nissen fundoplication
George Nissen (1914-2010) inventor of the modern trampoline
Henry Nissen (born 1948 as Henry Nissenbaum), German/Australian boxer of the 1970s
Steven E. Nissen (born 1949), heart specialist and chairman of cardiovascular medicine at the Cleveland Clinic
Christopher Nissen (born 1992), Danish singer