Using ATLAS-D2K

Using the ATLAS-D2K Data Browser Querying the ATLAS-D2K Data Browser Batch Querying Data Exporting Data 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 Sequencing Records (For Omics data)

Submitting Sequencing Data Submitting Single Cell Visualization Files

Submitting Specimen Records (For imaging data - and metadata about bio-specimens)

Submitting Specimen Records Adding Specimen Records From a File (DRAFT) Annotating images Color palette for image annotation Thumbnail creation guideline Available Video Platforms

Submitting Other Resources

Antibodies Cell Lines Protocols Entries for the Functional Assay Handbook Data Collections Requirements for Creating Schematics

Citing Data

Create Citable Datasets Shortcut URLs for Citation and Sharing

Editing and Uploading Tools and Features

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

Reference

Educational tutorials FAQs Formatting with Markdown

Using the ATLAS-D2K Data Browser

Learn the basics of search, browsing and filtering for genitourinary and kidney data in the ATLAS-D2K Data Browser.

This information refers to the old GUDMAP websites As of April 13, 2018. We are working on updating these to reflect the new ATLAS-D2K website. The information is somewhat similar between the two versions.

Here are new instructions for performing a batch query in GUDMAP.

How to find data in the ATLAS-D2K Data Browser

The following are videos made to illustrate how to use the new browsing, search and filtering features on the new GUDMAP3 website:

Finding microarray and heatmaps

Finding legacy sequencing data

Finding and viewing imaging data (H&E, Immunofluorescence)

Finding Protocols