Rooney told reporters: "He [Cissoko] has reacted, the player's [Perry Ng] been clever and very dangerous.
"He kicked the ball at him on purpose, that could have been a different colour to what he got, Ibs [Cissoko] has reacted in the wrong way.
"The emotions of the game sometimes, you get those reactions and unfortunately that's happened to us today."
He added: "We have to give Cardiff a lot of credit. They deserved to win the game, they were the better team."