Tokyo is just huge, an endless city, amazing both on the ground or at the 50th floor of a hotel or an office. If you are not high-sick and want to realize how huge is the metropolis, the only solution is to climb to the top of those buildings, often equipped with indoor and outdoor observatories. Towers like Skytree and Tokyo Tower are obviously among the most popular tourist attractions, but here is exhaustive list of places to see Tokyo from above.
My Japan Guide
Tokyo Office: 2-8-10 Kaminarimon
Taito-ku, Tokyo 111-0034
Kyoto Office: Sanjo-dori Takakura-Higashiiru, 70 Masuyacho, Nakagyo-ku, Kyoto 604-8111