A cell culture carrier module and a cell culture system having the same are provided. A cell tank and a culture medium module respectively communicate with the carrier module. The carrier module includes a reactor, a first fixer, a second fixer and a plurality of cell culture carriers. The reactor has a chamber and at least one inlet/outlet. The inlet/outlet communicates with the chamber. The first fixer is fixed to the reactor and located in the chamber. The second fixer is disposed in the chamber and is movable relative to the first fixer. Two ends of each cell culture carrier are fixed to the first fixer and the second fixer, respectively. The cell culture carriers are in an untwisted state or a twisted state according to a variation in a distance between the first fixer and the second fixer due to a movement of the second fixer.