A novel project called iKaaS (intelligent Knowledge-as-a-Service) was adapted as a Strategic Information and Communications R&D Promotion Programme (SCOPE), one of the projects funded by Ministry of Internal Affairs and Communications. This project aims an advanced knowledge-intensive platform that enables to provide and distribute the relevant information under strict consideration of privacy. This information distribution includes a cross-border one between EU and Japan, where privacy protection of the data subject is a major issue. To settle the privacy issues inside the project, DPEC (Data Protection and Ethical Community) was established as a governing organization for privacy. In this paper, we consider issues on the cross-border data distribution from the viewpoint of the legal system comparison between EU and Japan. As a result of the consideration, we introduce the governance framework of DPEC. Moreover, we clarify the issues to be discussed in the future cross-border data distribution and propose a privacy enhanced data protection scheme.