Beginning in April 5738 AD, it's been over 3,700 years since a mysterious flash petrified nearly all human life. A 15-year-old genius named Senku Ishigami is suddenly revived to find himself in a world where all traces of human civilization have been eroded by time. Senku sets up a base-camp and begins to study the petrified humans in order to determine the cause of the event, as well as a cure.
Over the next 6 months, Senku's friend Taiju Oki wakes up and Senku learns their revival was made possible with nitric acid. With this discovery, they develop a compound that will allow them to instantly revive others. They begin by reviving a famous martial artist named Tsukasa Shishio and their classmate (and Taiju's crush) Yuzuriha Ogawa with the goal of rebuilding civilization with a focus on science.