Genome3D Project

Genome3D is a model-view framework for displaying genomic and epigenomic data within a three-dimensional physical model of the human genome. In this framework, the model of the physical genome implicitly contains all levels of structure and hierarchy, and provides an underlying platform for integrating multi-scale structural and genomic information within three dimensions. The viewer is a Microsoft Windows based software designed to display data from multiple scales and uses a hierarchical model of the relative positions of all nucleotide atoms in the cell nucleus, i.e., the physical genome. With Genome3D, multi-resolution data can be interactively explored to uncover complex and new structural relationships. Genome3D is designed with a hierarchical architecture that establishes methods for incorporating new data of varying resolutions, and allows for user-defined annotations. The viewer can also be used to display other 3D genome models as long as they are specified in Genome3D format.

README Genome3D Viewer with Example Genome3D Models     -Genome3D Model A (1.0 Gigabyte)     -Genome3D Model B (1.3 Gigabyte) Genome3D Movie Additional Data     -Additional_Data_README.txt     -Genome3D_Model_A_xml.tar.gz (1.3 Gigabyte)     -Genome3D_Model_B_xml.tar.gz (1.6 Gigabyte)     -Genome3D_Model_C.tar.gz (1.6 Gigabyte)     -Genome3D_Model_D.tar.gz (1.6 Gigabyte) Citation     Genome3D: a viewer-model framework for integrating and visualizing multi-scale    epigenomic information within a three-dimensional genome.    Asbury TM, Mitman M, Tang J, Zheng WJ.    BMC Bioinformatics. 2010 Sep 2; 11(1):444. ISMB2011 Highlight Track Presentation     ISMB2011 Highlight Track Presentation, Vienna, July 18, 2011 Contact: Jim Zheng (zhengw@musc.edu)