Kyoto Seika University (KSU) established bachelor's program in manga & animation and became the first real, accredited university in the world to do so in 2006. Now, KSU has upgraded its manga & animation program to the graduate level. Starting in 2010, you can earn not only a bachelor's degree but also master's degree in manga and/or animation.
KSU's "Faculty of Manga" department consists of cartoon art, comic art (story manga), manga production, and animation. Professional manga artists, anime creators, producers and editors from industry teach those courses. A legendary shoujo manga expert Keiko Takemiya (Fly Me to the Moon, To Terra..., Kaze to Ki no Uta) is one of the professors.
However, all the classes are taught in Japanese so international applicants must pass Level 1 of the Japanese Language Proficiency Test for admission.
It means the applicant must have studied the language more than 900 hours, mastered 2.000 kanji characters and 10,000 vocabulary words, and is able to discuss manga & anime in Japanese. Ouch.
English homepage of KSU
