BiopathwayBuilder: Nested 3D Visualization System for Complex Molecular Interactions∗

In order to gain a full understanding of a biological process, we must be able to augment the known molecular interactions with discovered knowledge. We believe that a visualization system works as a means for accomplishing this task, as it provides an intuitive base for necessary information, among others. However, reported implementations have further problems: (1) The size of the information is not only enormous, but also grows very fast, which makes scalability and elision essential properties [5]; (2) the available information is not only incomplete, but also unreliable; and (3) the usual information in the field, such as protein modification [2], is inherently complex, which makes it very difficult to make the resulting visualization intuitive enough for end users as well as field experts. We address all the problems above with a 3D visualization system.