Model-Based Prediction of the 3D Trajectory of Huge DNA Sequences Interactive Visualization and Exploration

A general approach for the three-dimensional representation and visualization of DNA molecule is proposed. This approach is based on a biological 3D model that predicts the complex spatial trajectory of huge naked DNA. This approach makes it possible to have a global point of view of the sequence, in opposition to the textual representation. This brings a new vision and an original approach suitable to launch new bioinformatics studies for the analysis of the spatial architecture of the genome. Besides, in order to obtain a friendly interactive visualization, a dedicated modeling is presented with various graphical representations in order to adapt the visualization to different analysis scales. The paper describes spatial architecture modeling, with consideration of both biological and computational constraints. This work is implemented through a powerful graphic software tool, named ADN-Viewer. Several examples of visualization are shown for various organisms and biological elements.