The safety culture, the safety organization structure, the project safety assurance work, the monitor on project safety work, and the key safety control points (the safety milestones) are the five key points of safety assurance system. This paper presents an organization-level safety assurance system for signalling systems, which combines mature European safety assurance concepts and best practices. Engineering practices show that the safety assurance system can be effectively applied to the safety management of R&D projects of signalling systems and system integration projects of the CTCS-3 signalling and communication systems of passenger dedicated lines in China.