Using ATLAS-D2K

Querying the ATLAS-D2K Data Browser Batch Querying Data Boolean Anatomy Search Exporting Data Policy for Accessing Human Sequencing Data

Submitting Data - Before You Begin

Accessing ATLAS-D2K Resources Standard file formats for data submission Curation Workflow Data submission curation state diagram Reviewing Data for Release

Submitting Data

Data Collections Sequencing and Multiomics Specimen and Imaging Antibodies and Antibody Validation Cell Lines Protocols Functional Assays Handbook Single Cell Visualization Files Register Human Adult Data with HRA

Citing Data

Create Citable Datasets Shortcut URLs for Citation and Sharing

Editing and Uploading Tools and Features

Bulk Upload with DERIVA Client Tools Bulk Uploading Images Advanced Editing Features Commandlines and Libraries Tips for Submitting Large or Complex Data

Reference

Educational tutorials FAQs Formatting with Markdown

Policy for accessing human sequencing data

Protected Human Sequencing Data

The following sequencing data (fastq and bam) are protected in order to maintain donor privacy.

Embryonic human sequencing data
Consented adult human sequencing data (will be made publicly available soon)

Note: The following data are publicly available

Mouse sequencing data
All processed and analysis data (at the replicate or study level)

Accessing protected sequencing data

To access protected human sequencing data:

Send email to help@atlas-d2k.org stated your name, research/academic institution, the sequencing studies of interest, and the purposes for using the data.
Subscribe to the kidney-reader group. Follow the following instruction on how to subscribe to a group.
Once your subscription is approved, you will be able to login to the ATLAS-D2K to access the GUDMAP Sequencing Studies or GUDMAP Sequencing Studies of interest.
There are two ways of download the sequencing data
- Manually download individual files by clicking on the download button of each file.
- Export the sequencing study in bulk. Click here to see the export instruction.