On January 29-30,2013, the 2nd Canada-Japan Nanotechnology Workshop 2013 was held at Tokyo Big Sight. The first workshop was held in 2011 at Waterloo, Canada, to strengthen collaboration in the field of Nanotechnology R&D through high-level discussions on the occasion of the 25th anniversary of the Canada-Japan Science and Technology Agreement. This time the workshop has identified to discuss about future collaboration in the filed of environment and energy, nano-electronics, quantum electronics, biomaterials, and nano-structures/tools. 5keynote lectures including about the current Japanese policy toward science and technology and nanotechnology research in Canada were performed. In the research sessions, 20 speakers from institutes in both countries including 5 MANA researchers has oral presentations about the latest result and activities in filed of the abovementioned. Active discussions were performed among 95 participants in total and a joint statement has issued at the end of the workshop.