An automatic cell isolation and collection system adapted for sorting out target cells from a sample, said automatic cell isolation and collection system comprising: a crush module including a container that defines an accommodating space adapted for receiving the sample therein, and a crusher that is removably disposed in said accommodating space and that is for crushing the sample; a centrifuge module spaced apart from said crush module, said centrifuge module including a centrifuge seat, a plurality of spaced-apart centrifuge tubes that are disposed on said centrifuge seat, and a magnetic mechanism that is spaced apart from said centrifuge seat and that provides a magnetically attractive force to at least one of said centrifuge tubes; a transport module disposed along a path between said crush module and said centrifuge module, said transport module including a movable connecting seat and a pipettor that is co-movably connected to said connecting seat, wherein said pipettor is for transferring of the sample from said container to said centrifuge tubes, for transferring of a reagent to said centrifuge tubes, for transferring of antibody-conjugated magnetic beads to said centrifuge tubes, and for uniformly mixing the beads and the target cells in said centrifuge tubes by repeated pipetting action for conjugating the beads to the target cells; and a control unit in electrical communication with said crush module, said centrifuge module, and said transport module, said control unit controlling crushing operation of said crush module, transport of the sample to said centrifuge module via said transport module after the sample is crushed by said crush module, centrifugation of said centrifuge module, and operation of said magnetic mechanism for providing a magnetically attractive force to the beads in at least one of said centrifuge tubes of said centrifuge module to move the target cells together with the beads in order to isolate the target cells conjugated with the beads from the sample. a crush module including a container that defines an accommodating space adapted for receiving the sample therein, and a crusher that is removably disposed in said accommodating space and that is for crushing the sample; a centrifuge module spaced apart from said crush module, said centrifuge module including a centrifuge seat, a plurality of spaced-apart centrifuge tubes that are disposed on said centrifuge seat, and a magnetic mechanism that is spaced apart from said centrifuge seat and that provides a magnetically attractive force to at least one of said centrifuge tubes; a transport module disposed along a path between said crush module and said centrifuge module, said transport module including a movable connecting seat and a pipettor that is co-movably connected to said connecting seat, wherein said pipettor is for transferring of the sample from said container to said centrifuge tubes, for transferring of a reagent to said centrifuge tubes, for transferring of antibody-conjugated magnetic beads to said centrifuge tubes, and for uniformly mixing the beads and the target cells in said centrifuge tubes by repeated pipetting action for conjugating the beads to the target cells; and a control unit in electrical communication with said crush module, said centrifuge module, and said transport module, said control unit controlling crushing operation of said crush module, transport of the sample to said centrifuge module via said transport module after the sample is crushed by said crush module, centrifugation of said centrifuge module, and operation of said magnetic mechanism for providing a magnetically attractive force to the beads in at least one of said centrifuge tubes of said centrifuge module to move the target cells together with the beads in order to isolate the target cells conjugated with the beads from the sample.