Abstract: In the era of big data, the dissemination of big data information in the field of university governance has brought about the diversification of values and intensified the ideological conflict. Big data information has made university governance transparent, and the pressure of social and market accountability has increased, which has caused the imbalance of the external governance structure of universities, and that is easy to lead to the shift of ideological dominance. Big data information makes the internal governance boundary of colleges and universities vague, which is easy to cause ideological infiltration. In order to solve the problem of Ideological Security in university governance from the perspective of big data, university governance should set up big data thinking of Ideological Security in the concept level, strengthen the leading power of Ideological Security in the system level, and carry out the construction of ideological security process in the process level, and ensure ideological security in university governance from the perspective of big data.