The 16-year-old, who was shot by the Taliban for championing girls' right to an education, was overlooked for the prize, with the Nobel committee instead honouring the Organisation for the Prohibition of Chemical Weapons.
In a statement through the public relations firm representing her, the teenager congratulated the OPCW and thanked those who had pressed for her to win.
"The OPCW is an important organisation working on the ground to help rid the world of chemical weapons. I would like to congratulate them on this much-deserved global recognition," she said.
"I will continue to fight for the education for every child, and I hope people will continue to support me in my cause."
The Pakistani Taliban said today they were "delighted" that she missed out on the prize.
The Tehreek-e-Taliban Pakistan shot Yousafzai in the head on her school bus on October 9 last year for speaking out against them.
