"Silence" is a historical novel set in the 17th century, which follows a Portuguese Jesuit missionary who travels to Japan to comfort local Christians and find his mentor, who is rumored to have renounced his faith. The protagonist experiences the brutal persecution of Christians by the Japanese government, and grapples with the silence of God in the face of suffering. The narrative explores themes of faith, doubt, cultural clash, and the human capacity for both cruelty and endurance.

The book revolves around a Swiss classics teacher who, upon encountering a mysterious book by a Portuguese author, becomes obsessed with the life and thoughts of the writer. This obsession leads him to abandon his job and life in Bern, embarking on an impulsive journey to Lisbon. In his quest to understand the author's fate and the resistance movement against the Portuguese dictatorship that the author was involved in, the protagonist explores themes of history, philosophy, and the complexities of human character. As he delves deeper into the past, he encounters various individuals who were connected to the author, piecing together a narrative that challenges his own understanding of life and identity.