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With the fast development of the communication technology, the reliability and the availability of the wireless-communication have been greatly improved, and the Communication Based Train Control System (CBTC) has been formed. The Zone Controller is a subsystem of the CBTC system, which plays the role of computing and presenting Movement Authority (MA) to the train and managing the train. So the safety of the ZC subsystem will directly influence the safety of the train. This paper has taken the ZC subsystem as an example, particularly the functions of MA computation, to describe a Functional Safety Analysis Approach and its concrete implementation in the CBTC system.