[Purposes] This paper aims to understand the influence direction and influence intensity of the factors affecting the communication effect of new media science journals after the rise of new media. [Methods] The questionnaire survey method was used to investigate the twenty factors of the four dimensions of the scientific journals such as brand image, academic level, new media communication degree, and new media performance for college teachers, scientific journal practitioners, and university students. The SPSS 22.0 software was used to analyze the data. [Findings] Brand image, academic level, new media communication degree, and new media performance all have a positive impact on the publicity of scientific journals. The impact of the four dimensions on the effectiveness of scientific journals is academic level, new media communication, brand image, and new media performance in sequence. [Conclusions] In order to maintain the good communication results, scientific journals must continuously improve their academic level, and at the same time accelerate the pace of new media.