The Wachowskis were strongly influenced by Ghost in the Shell, Ninja Scroll, and Akira. They've talked about it in the interviews regularly

When Larry and Andy Wachowski were pitching The Matrix to their producers, they played them a DVD of an 82-minute Japanese cartoon and said: "We wanna do that for real." The film was 1995's Ghost in the Shell, which defined a visual identity for cyberpunk cinema and counts James Cameron and Steven Spielberg among its most high-profile fans. The Guardian - Hollywood is haunted by Ghost in the Shell