Introduction to 4DN Metadata

Overview

  • The 4DN Data Portal will be the primary access point to the omics and imaging data, analysis tools, and integrative models generated and utilized by the 4DN Network.
  • The primary high level organizing principle for the data is sets of replicate experiments.
  • A good entry point for exploring available data is the Browse Page.
  • See below for an overview of our metadata model.
  • As of September 2017, the portal is currently open to the network for data submission for standard functional genomics experiments (Hi-C and variants, ChIA-PET and variants, RNA-seq, ChIP-seq, ATAC-seq).
  • Continuing developments in the metadata model and data portal are ongoing.

Notes for prospective submitters

If you would like submit data to the portal:

  • You will need to create a user account.
  • Please skim through the metadata structure.
  • Check out the other pages in the Help menu for detailed information on the submission process.
  • Of note are the required metadata for the biological samples used in experiments, which is specified on this page.
  • We can set up a webex call to discuss the details and the most convenient approach for your existing system.

Metadata Structure

The DCIC, with input from different 4DN Network Working groups, has defined a metadata structure to describe:

  • biological samples
  • experimental methods
  • data files
  • analysis steps
  • and other pertinent data.

The framework for the the metadata structure is based on the work of ENCODE DCC.

The metadata is organized as objects that are related with each other. An overview of the major objects is provided in the following slides.

720x540

In our database: