We strive to meet the FAIR data principles and to contribute to appropriate open data initiatives in order to maximise the impact of the User research data. Dissemination of the generated data (sequencing data - raw and analysed data) is therefore required of the TNA-users through relevant specialised data repositories:
- European Genome-phenome Archive (EGA) for human data.
- European Nucleotide Archive (ENA) for non-human data.
Frequently Asked Questions about data deposition:
2. It makes data searchable and reproducible. This contributes to a healthy data cycle, maximises research output and facilitates citations to the authors.
3. Human data is all the time managed in a law-compliant manner (European GDPR). No research institute could offer the same level of storage security (against hack, damage and loss).
If you have a 4th TNA call project, please refer to the specific conditions of the MTA.
EGA: you are welcome to deposit the data as any other researcher does. If you need help, nonetheless, you can mention that you are a user of EASI-Genomics project, when contacting helpdesk at firstname.lastname@example.org. Data should be tagged with the EASI-Genomics tag.
ENA: the ENA helpdesk team is happy to address any issues encountered during data deposition. For all EASI-Genomics related queries, please contact us on email@example.com. Please include the institution name and project proposal ID (PID) in your email.
ENA: It is strongly recommended to tag an EASI-Genomics study by adding the shared study keyword ‘EASI-Genomics’. You may include this either at the time of study registration or after your study has already been registered using the ‘Add Study Attributes’ section. Further guidance on how to do this can be found here.
EGA: Yes, the facility can do it following the steps described in this quick guide and then starting the process here.
ENA: EASI-Genomics partner facilities can submit data on behalf of TNA users by registering as brokers. This ensures data ownership is acknowledged and included in the submission, but the broker's identity is also added to the materials they submit. You can read more about this here and further below in these FAQs. We encourage you to take advantage of the data brokering service that is available from your EASI-Genomics partner facility.
EGA: All types of sequencing of human DNA or RNA including, but not limited to Whole Genome sequencing, RNA-sequencing, Exome sequencing, RNA expression microarray, etc. Read more here.
ENA: ENA is used for archiving all types of non-sensitive nucleotide sequencing data of non-human DNA or RNA as well as ancient DNA. This covers raw sequencing data, sequence assembly information, metadata and functional annotation.
EGA: Submitting the data and metadata to the EGA catalogue to have it safely stored in their facility.
ENA: Submission of data and associated metadata to an open, supported platform for the management, sharing, integration, archiving and dissemination of sequence data.
EGA: No, the authors of the sequencing work (Data controllers) can choose to have an embargo time on their data. (For example until the first paper where the data is included is published). Read more here.
ENA: No, submitters can set a release date for their data which can be up to 2 years from now. This date can be preponed/postponed to release their data as needed.
EGA: Not yet, but coming soon!
ENA: Yes, EASI-Genomics partner facilities can submit data on behalf of TNA users by registering as brokers. This ensures data ownership is acknowledged and included in the submission, but the broker's identity is also added to the materials they submit. You can read more about this here.
EGA: The researchers who deposit are the Data controller of their datasets (to be GDPR compliant) and thus maintain all the decision power and responsibility to grant or deny access over their data. EGA acts as a data processor and can never grant access to any dataset.
ENA: Data submitters have control on when submitted data goes public and can be accessed. Once the data has been released, it is openly available to the public. If for some reason the submitter wants to retract this data, it can be suppressed by our team given there’s a valid reason.
EGA: Yes, the researchers who deposit are the Data controller of their datasets and thus maintain all the decision power and responsibility to grant or deny access over their data. There are public sections of the metadata which are always queryable (data description) through the metadata API.
ENA: Data submitters have control on when submitted data goes public and can be accessed. Once the data has been released, it is openly available to the public.
EGA: The first step is to have the Sequencing data in the accepted format (read here) and all the metadata available (read more here). The deposition process can be started by using the link in the EGA website.
ENA: The first step is to ensure all your data files are in one of the accepted formats. Accepted data formats can be found here. You then need to make sure you have all the metadata associated with your samples and data. You can then register a Webin account at the Webin Submissions Portal to start the deposition process.
EGA: you can contact our helpdesk through firstname.lastname@example.org.
ENA: For EASI-Genomics related questions, please contact us on email@example.com. For any other queries, please contact our general helpdesk.