The magazine gave away an autographed 80GB iPod to the reader who created the best music video for Jonathan Coulton's song, I Feel Fantastic.
The winning vote went to YouTube member AnnieKate76. Coulton said: "I like AnnieKate's video because it's got this very simple visual look, but it's deep, man. I keep noticing new stuff every time I watch it, all these quick cuts to funny things. It's like an episode of Lost, but funny, and with stick figures."
Popular Science has also published the top five runners-up entries, including machinima and live-action music videos.