The SciLifeLab Data Repository, powered by Figshare, is a repository for publishing any kind of research-related data, e.g. documents, figures, or presentations. Figshare is an open data repository used by researchers in numerous disciplines. Through an agreement with Figshare, SciLifeLab offers researchers and facilities the opportunity to upload and publish their research data through a dedicated portal.
The purpose of the SciLifeLab Data Repository is to serve publishing of data. The Repository is not meant for restricted data sharing between project partners only or as temporary storage, and all data uploaded is expected to become public at some point. However, data that requires controlled access can also be handled, by submitting a meta data record without the actual raw data itself.
Individual users automatically receive 50 GB of storage space which can be increased by request. When uploaded data is published, a permanent DOI link is created which can be used for citations.
We are working on a federated EGA solution, where sensitive human genomic and phenotypic data can be stored locally e.g. in Sweden, and the metadata stored centrally at EGA to make the data discoverable. The Swedish node is close, but not yet in a production stage (hopefully later this year). In the meantime we suggest to keep the human sequencing data stored locally, and make a metadata-only record in the SciLifeLab Data Repository with contact details on how to get access, and for which a DOI can be issued. The DOI can then be used in the article to refer to the dataset. Once the Swedish EGA node is operational, and the dataset deposited there, the access information can be changed to point at the EGA ID. See https://doi.org/10.17044/NBIS/G000014, for an example.
For additional information on sensitive data, see here.
See the SciLifeLab data guidelines.
Many SciLifeLab affiliated researchers or facility staff already have accounts. To check if you have an account, go to this link, type your email address and click submit. If you receive an email you already have an account and need to set up a password before you can log in. You can set up a password by following the instructions in the received email.
If you don’t have an account, email firstname.lastname@example.org and an account will be created for you.
To login, go to the SciLifeLab Data repository and click on the red Log in button in the top right side of the screen. Enter your user name and password.
There are several ways to upload your data:
The following item types can be uploaded to the SciLifeLab Data Repository:
When uploading an item you will be asked to fill in a metadata form. The metadata form consists of both mandatory and non-mandatory fields.
Mandatory metadata: title, author, subject category, item type, keywords, license, description and contact email.
Additional metadata: funding, resource, references, publisher and access request email.
There are a number of reasons why you may want to conditionally upload your files:
Select the Apply Embargo button in the metadata form. Select a time period for the embargo; for permanent embargoes, select ‘permanent embargo’ at the bottom of the dropdown menu. Choose whether the embargo is on the files only or on the entire content (files and metadata).
The item owner can also add an option reason as to why this item is under an embargo. This is useful for people who are viewing the public metadata record.
Click the Link File button at the top of the screen and copy the link in the box. This option only appears if you haven’t uploaded a file to the item.
Tick the metadata record only box at the top of the screen and enter a reason for this choice. This option only appears if you haven’t uploaded a file to the item.
Click on the Reserve Digital Object Identifier button in the metadata form to reserve a DOI for your item. This DOI can be used to cite your data in publications.
Click on the Generate private link button in the metadata form to create a link that you can share. If desired, this link can be disconnected in the future. Please note that this link should not be used to cite your data in publications.
Projects are collaborative spaces used for ongoing work. You can upload data that is in progress and have users make comments. Projects are secure spaces that can be used for sensitive data. You can also collaborate with people outside your institution by inviting them to your project.
There are two different types of projects: individual projects and group projects.
|Individual Projects||Group Projects|
|Everyone uses their own quota and account storage.||Submitters’ quota will not be used, storage allocation comes directly from the project.|
|People take their work with them if they leave the project.||All work is stored on institutional storage and remains within the project space if people leave.|
|Items are created using the metadata schema of the submitter.||Contributors must adopt the metadata schema of the project owner.|
|Items appear in the subgroup of the uploader.||Items appear in the subgroup of the project owner.|
|Items published by users from outside the organisation don’t have to go through review (if review is turned on for the group).||Items published by users from outside the organisation have to go through review (if review is turned on for the group).|
Collections are ways of collating data that bring it together under a theme. They can be either private or public and can be assigned a DOI.
Before publishing, consider attaching both a readme.txt file and a manifest file, containing a checksum, to the item. The readme.txt file should preferably contain the same metadata as are stated in the metadata form. This will simplify for someone who downloads the item.
You can go back and edit items after you’ve made them publicly available. Some changes may trigger a new version. See here to find out which amends will generate a new version of your item. When a new version is generated, the previous versions will still be available. Each version will have its own DOI where the version number is added as a suffix to the original DOI.
You can also batch edit items that have already been published. In My Data, select the items to be updated, click on Actions at the top of the page, and select Edit in batch. Once you’ve selected the items to be edited in bulk, select the metadata fields to edit.
Click on the Delete item button in the metadata form to delete a private item.
Published items are considered to be published permanently and can only be deleted in special cases.
You must add licenses for how the published material can be reused. Files which have been uploaded and published cannot be altered, although the entry’s metadata can be edited after publishing, see Edit Files. The platform supports versioning of datasets in case the files need to be updated. Sensitive personal data cannot be deposited in the SciLifeLab Data Repository, but metadata descriptions of such datasets can be submitted, see Sensitive data. It is not allowed to upload illegal material, claim authorship of the work of others, or in other ways misuse the service in such ways that violates laws or research ethics.
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