Using computational models for development of the three-dimensional visualization in molecular biology

Abstract

A method for three-dimensional visualization of molecular biology processes modeled by chemical kinetic equations is presented. To implement this visualization, the software in C# and a database of three-dimensional forms that model molecular complexes are developed. The quantitative parameters in this visualization scheme are determined from kinetic equations governing the participating components, so our visualization is not only qualitative but also quantitative. As a case study, it was visualized a mathematical model for mitochondria-dependent apoptosis (programmed cell death) proposed by Bagci et all [19].