Since the 21^st century, advanced technologies have prompted the divergence of learning materials. Recently, learning materials for immersive learning, adopting contents based on raw microscopic data, are emerging. As such, technologic advancement of microscopy has been emerging, as well as that of learning materials. This work-in-progress study describes the approach to envision the structure and function of organelles in plant cells based on more precise raw microscopic data as learning material for students.