Off-duty Japan Self-Defense Forces (JSDF) officer and otaku, Youji Itami, is on his way to attend a doujin convention in Ginza, Tokyo when a mysterious portal in the shape of a large gate suddenly appears. From this gate, supernatural creatures and warriors clad in medieval armor emerge, charging through the city, killing and destroying everything in their path. With swift actions, Youji saves as many lives as he can while the rest of the JSDF direct their efforts towards stopping the invasion. Three months after the attack, Youji has been tasked with leading a special recon team, as part of a JSDF task force, that will be sent to the world beyond the gate—now being referred to as the "Special Region." They must travel into this unknown world in order to learn more about what they are dealing with and attempt to befriend the locals in hopes of creating peaceful ties with the ruling empire.

Humanity has found a way to achieve infinite energy by using coils to draw it from the fourth plane: dimension "W". With the production of coils having been monopolized by the New Tesla energy company, freelance collectors are hired to find and remove any illegal, unofficial coils. This is the story of collector Kyōma, who also happens to have a huge hatred towards coils. During one of his missions he stumbles upon a female android that perceives herself as being human, leading the two to enter an unlikely partnership.

Two realms exist in the ancient land of Yanato: the Lofty Realm, where gods reside, and the Lowly Realm, where humans reside. Princess Sakuna was the daughter of the god of war and goddess of harvest, but she led a lazy life. One day, she is banished to Hinoe Island, the Isle of Demons. Stranded in a barren land, Sakuna sets out to slay demons and farm rice. Her new adventure begins!

Alcohol, smoking, and stress—in the body subjected to these irritants, the cells responsible for maintaining life seem to fight a war that never ends. Due to a severe shortage of workers, Red Blood Cell AA2153 has to quickly learn to deliver oxygen and collect carbon dioxide, even in dangerous conditions. Meanwhile, White Blood Cell U-1196 has to do her part by dealing with germs and viruses during life-threatening situations. In the midst of these crises, they have to work together to keep the body healthy, despite not knowing if their sacrifices will be worthwhile. Cells at Work! Code Black takes a different approach by showing the grittier side of the jobs our cells perform.

Who is the real you? The "Tasokare Hotel" exists in a state of twilight limbo, allowing souls caught between the afterlife and the world of the living to rest. Neko Tsukahara arrives with no memory of who she is or how she came to be there, and is shown to a room filled with items relating to her past. As she searches for a way to remember who she was, a certain incident confronts her.

As soon as he entered high school, the first year student Koshiyama Shiki was invited to the mysterious Quiz Study Group led by his senpai. What will Shiki run into when being dragged along by his class mate Mari into the dazzling world of competitive quizzes?!