Classes at Kumamoto University, Kumamoto Gakuen University, and Sojo University are currently scheduled to resume on May 9th. Tokai University has canceled classes through May 15th. For all universities, this will probably mean that classes with need to be scheduled for the summer.
Kumamoto University http://www.kumamoto-u.ac.jp/daigakuseikatsu/kyoumu/news/280416-5
Kumamoto Gakuen University http://www.kumagaku.ac.jp/news/archives/1006
Sojo University http://www.sojo-u.ac.jp/important/160419_006860.html
Tokai University http://www.u-tokai.ac.jp/emergency/detail/post_8.html
– Kirk
P.S. The image is from the Kumamoto Gakuen University announcement (see URL shown above)