Recommended Data Repositories

Scientific Data mandates the release of datasets accompanying our Data Descriptors, but we do not ourselves host data. Instead, we ask authors to submit datasets to an appropriate public data repository. Data should be submitted to discipline-specific, community-recognized repositories where possible, or to generalist repositories if no suitable community resource is available.

Repositories included on this page have been evaluated to ensure that they meet our requirements for data access, preservation and stability. Please be aware, however, that some repositories on this page may only accept data from those funded by specific sources, or may charge for hosting data. Please ensure you are aware of any deposition policies for your chosen repository. If your repository of choice is not listed please see our guidelines for suggesting additional repositories.

Authors must deposit their data to a recommended data repository as part of the manuscript submission process; manuscripts will not otherwise be sent for review. If data have not been deposited to a repository prior to manuscript submission, authors can upload their data to figshare or the Dryad Digital Repository during the submission process. Data may also be deposited to these resources temporarily, if the main host repository does not support confidential peer review.

We provide a date-stamped archive of our recommended repository list, which we will update every quarter. The archived list is available for use under the CC-BY licence. Recommended repositories and standards that are indexed by BioSharing, can be also be viewed and filtered via the Scientific Data BioSharing collection.

View data repositories

Biological sciences

Nucleic acid sequence

Sequence information should be deposited following the MIxS guidelines.

Simple genetic polymorphisms or structural variations should be submitted to dbSNP or dbVar (please note that these repositories cannot accept sensitive data derived from human subjects); the NCBI Trace Archive may be used for capillary electrophoresis data, while SRA accepts NGS data only.

Protein sequence

Molecular & supramolecular structure

These repositories accept structural data for small molecules (COD); peptides and proteins (all); and larger assemblies (EMDB).

Small molecule crystallographic data should be uploaded to Dryad or figshare before manuscript submission, and should include a .cif file, a structural figure with probability ellipsoids, and structure factors for each structure. Both the structure factors and the structural output must have been checked using the IUCR's CheckCIF routine, and a copy of the output must be included at submission, together with a justification for any alerts reported.

Neuroscience

These data repositories all accept human-derived data (NeuroMorpho.org additionally accepts imaging data from other organisms). Please note that human-subject data submitted to OpenfMRI must be de-identified, while FCP/INDI can handle sensitive patient data.

Omics

Functional genomics

Functional genomics is a broad experimental category, and Scientific Data's recommendations in this discipline likewise bridge disparate research disciplines. Data should be deposited following the relevant community requirements where possible.

Please refer to the MIAME standard for microarray data. Molecular interaction data should be deposited with a member of the International Molecular Exchange Consortium (IMEx), following the MIMIx recommendations.

For data linking genotyping and phenotyping information in human subjects, we strongly recommend submission to dbGAP, EGA or JGA, which have mechanisms in place to handle sensitive data.

Metabolomics

Metabolomics data should be submitted following the MSI guidelines.

Proteomics

We ask authors to submit proteomics data to members of the ProteomeXchange consortium (listed below), following the MIAPE recommendations.

Taxonomy & species diversity

Mathematical & modelling resources

Cytometry & Immunology

Organism-focused resources

These resources provide information specific to a particular organism or disease pathogen. They may accept phenotype information, sequences, genome annotations and gene expression patterns, among other types of data. Incorporating data into these resources can be very valuable for promoting reuse within these specific communities; however, where applicable, we ask that data records be submitted both to a community repository and to one suitable for the type of data (e.g. transcriptome profiling; please see above).

Health sciences

Some of the repositories in this section are suitable for datasets requiring restricted data access, which may be required for the preservation of study participant anonymity in clinical datasets. We suggest contacting repositories directly to determine those with data access controls best suited to the specific requirements of your study.

Chemistry & chemical biology

Earth and environmental sciences

Physics, astrophysics & astronomy

Social science

Generalist repositories

Scientific Data encourages authors to archive data to one of the above data-type specific repositories where possible. Where a data-type specific repository is not available, we recommend the following generalist repositories, which can handle a wide variety of data. Generalist repositories may also be appropriate for archiving associated analyses, or experimental-control data, supplementing the primary data in a data-type specific repository.

Repository Name Information on fees/costs Size limits Integrated with Scientific Data's manuscript submission system Re3data / BioSharing entry
Dryad Digital Repository $120 USD for first 20 GB, and $50 USD for each additional 10 GB None stated Yes ✔ view BioSharing entry
figshare 100 GB free per Scientific Data manuscript. Additional fees apply for larger datasets 1 TB per dataset

Yes ✔ - To qualify for the 100 GB of free storage, data must be uploaded to figshare via our submission system. Download instructions.

view BioSharing entry
Harvard Dataverse Contact repository for datasets over 1 TB

2.5 GB per file, 10 GB per dataset

No view re3data entry
Open Science Framework None stated 5 GB per file, multiple files can be uploaded No view BioSharing entry
Zenodo Cost information 50 GB per dataset No view re3data entry

Other repositories

In areas where well-established subject or data-type specific repositories exist, we ask authors to submit their data to the appropriate resources. If none of the discipline-specific repositories listed above are suitable, Scientific Data is glad to support the use of other repositories, if they are able to mint DataCite DOIs for hosted data, and share data under open terms of use (for example the CC0 waiver). These might include institutional, project-specific or national archives, which only accept data deposition from researchers associated with a specific institution, project, or nation respectively.

Prospective authors can use re3data.org to browse lists of data repositories certified by World Data Systems or Data Seal of Approval that may meet these requirements. These lists include a number of high-quality institutional, national and project-specific data repositories.

To use one of these other repositories, select ‘DataCite DOI’ as the repository name during manuscript submission. Please note that if your chosen repository is unable to support confidential peer-review, you will be asked to temporarily deposit a copy of the dataset to one of our integrated generalist repositories to facilitate review of your article. Upon completion of peer review, the temporary copy will be erased.

 

*Curated resource which may not accept direct submission of data. Contact the database directly for further information.