The 4D Nucleome Data Portal hosts data generated by the 4DN Network and other reference nucleomics data sets, and an expanding tool set for open data processing and visualization.
The 4D Nucleome Network aims to understand the principles underlying nuclear organization in space and time, the role nuclear organization plays in gene expression and cellular function, and how changes in nuclear organization affect normal development as well as various diseases. The program is developing novel tools to explore the dynamic nuclear architecture and its role in gene expression programs, models to examine the relationship between nuclear organization and function, and reference maps of nuclear architecture in a variety of cells and tissues as a community resource.
Click Browse to see the available data. If you are a Network member, please log in to access internally released preliminary data sets. Please direct any questions on the data portal to the Data Coordination and Intregration Center.
Since our last data release updates in June, 110 Experiment Sets generated by 4DN have been released to the public, including the portal's first single cell Hi-C, MARGI, and Single Particle Tracking (SPT) experiment sets. Details can be found here.
Our pipelines are packaged open source using Common Workflow Language (CWL) and Docker containers, which can be found on GitHub. They are executed openly on the cloud environment using our home-grown cloud resource management system Tibanna.
Between our first data freeze in mid-February 2018 and June 1, 2018, we are pleased to announce the public release of 78 new experiment sets on the data portal. See the Public Release Updates page for details.
We have recently integrated a HiGlass browser for visualization of HiC results. To use HiGlass in the portal, click on a HiC experiment set (such as 4DNES2M5JIGV), then in the processed files tab and click on an mcool file. The page for each mcool file will have a HiGlass browser tab. Some instructions on using HiGlass can be found here.