Submitting your data to PRIDE:

PRIDE encourages and welcomes direct user submissions of protein and peptide identification data to be published in peer-reviewed publications.

Follow these simple steps to submit your data:

1. If you do not already have a PRIDE account, create one here (after which you will be logged in automatically).

2. Create a PRIDE XML file using the PRIDE Converter tool. Please take a moment to review the Submission Guidelines before you create your submission files.

3. Recommended: Check your PRIDE XML file using the PRIDE Inspector tool.

4. Email pride-support@ebi.ac.uk for FTP details to upload your generated PRIDE XML file(s). We will send you an email with the FTP details.

5. Upload your XML file(s) to the FTP server. Send us an email once the upload is complete.

6. Our curators will submit your data on your behalf and will contact you if any further information is required. Upon successful submission, you will receive an email with the detais of your submission, which you can include in your manuscript.

NOTE: Unless specifically requested otherwise, we will submit your dataset(s) as 'private', which means you need to be logged-in to view your data. We will however also create a reviewer account for your submission which you can include in your manuscript. By default, your data will be made publicly available after your manuscript has been accepted, or when we have your instructions to do so.

While we may also receive acceptance notifications from Journals, we would like to ask all submitters to kindly notify us separately.

Please contact pride-support@ebi.ac.uk for assistance or advice.

Online submissions are not possible. All submissions have to be uploaded via FTP. Please contact pride-support@ebi.ac.uk to obtain the FTP details to upload your PRIDE XML file(s).

Software Tools

The PRIDE Converter is a free, open source tool that converts MS data into valid PRIDE XML. It is a convenient, wizard-like graphical user interface written in Java with efficient access to the Ontology Lookup Service (OLS) for easy data annotation with ontology terms. PRIDE Converter supports a broad variety of input formats; see the project homepage for more information on supported formats, and instructions on how to download and use the application.

New Tool PRIDE Inspector is a free, open source tool for visualizing and performing initial assessment on the PRIDE XML files generated using PRIDE Converter. You can download it from here.

A PRIDE XML preparation tool is also available from a third party project, using the ISA Infrastructure (http://isatab.sourceforge.net/).

For those wishing to create a pipeline from their data warehouse to PRIDE XML, the PRIDE core API can be used to generate valid XML files. Information on how to use the PRIDE API can be found here

Accessing Private Data

PRIDE allows data to be uploaded privately, either in advance of publication or to allow data to be shared by a collaboration. To access private data you first need to Login to PRIDE or if you do not have a PRIDE username and password you may wish to register a new username and password Collaborations can be created by any registered PRIDE user and and other PRIDE users can request to join collaborations. The user who created a collaboration will then confirm the requesters membership and they will be able to access the data privately held in the collaboration from that point on. You can also view your data set by choosing the "Private Download" option in the PRIDE Inspector. Login using your user account (or the reviewer account we�ve created for you) is required.