Update on Data Centre Activities


The Data Centre has a mandate from the SciLifeLab board to express the voice of SciLifeLab units towards host universities, SNIC and other parties for issues concerning IT and data management, and to promote better coordination of the data infrastructure of life sciences in Sweden.

As a part of this work, we will host meetings in both Uppsala and Solna on a regular basis to meet with the facilities, so you can talk to us directly about your current IT or data management needs.

Facility IT planning meetings 2019:

January 29, 10.00 – Video conference meeting SciLifeLab2@vconf.kth.se
January 30, 10.00 – Solna (Milkyway, Alfa floor 2)
January 31, 10.00 – Uppsala (E10:2309, Navet floor 2)

March 26, 13.00 – Video conference meeting SciLifeLab2@vconf.kth.se
March 27, 10.00 – Uppsala (E10:3309, Navet floor 3)
March 28, 10.00 – Solna (Becquerel, Gamma floor 5)

September 24, 13.00 – Video conference meeting SciLifeLab2@vconf.kth.se
September 25, 10.00 – Uppsala (E10:2309, Navet floor 2)
September 26, 10.00 – Solna (Becquerel, Gamma floor 5)

November 19, 13.00 – Video conference meeting SciLifeLab2@vconf.kth.se
November 20, 10.00 – Uppsala (E10:2309, Navet floor 2)
November 21, 10.00 – Solna (Becquerel, Gamma floor 5)

We will follow up on these meetings by meeting SciLifeLab management, as well as SNIC, to present and discuss what you tell us and work to get the decisions and the funding to concretely address your needs, in synergy with the needs of all SciLifeLab units. Your input is invaluable and there will be many other ways for you to interact with us to improve IT and data handling in SciLifeLab.   

Like previous years, we will also arrange a larger workshop in September. In 2019, the topic will be Open Science and Good Data Practises, and be held in Uppsala on Sept 18.

More detailed information will go out in time before these events.

So, what kind of services can we offer you?

We have a number of services available to facilities, and some things are in development. Our aim is to provide better services for the facilities, and produce an encouraging and supportive environment for you to be able to help your users. At any time, please tell us what your unit requires or what would be helpful. All our services are currently provided for free for facilities. Contact us at datacentre@scilifelab.se for any of the following:

Order Portal: The Order Portal is a web based system for facility communication with prospective users. Order Portal instances are now configured for several new facilities. We can provide you with an instance configured according to your own specific requirements. You can try out a demo instance at https://orderportal.scilifelab.se, contact us at datacentre@scilifelab.se, or Per Kraulis directly at per.kraulis@scilifelab.se. The service is free and supported for individual facilities, within reason.

ProjectPlace: This is a cloud based system for project planning and storing documents, made available through agreement with UU, and approved also for storage of non-sensitive personal data.

Slack: Slack, an online communication tool, is provided to all SciLifeLab affiliated users. This is a lightweight tool for communication, very useful in teams and user friendly. Many teams in SciLifeLab use this for within-team or within-project daily chats. If you have an email address at @scilifelab.se, @scilifelab.uu.se or @nbis.se, simply go to https://scilifelab.slack.com, and create accounts for yourself and any facility personnel. For those of you with other local university accounts, email your user lists to datacentre@scilifelab.se and we will create accounts for you.

Publication database: The current search and browse interface of the Publication database (https://publications.scilifelab.se) now also contains functionality to add crossrefs to published datasets associated with the publication record. Also, research publications from SciLifeLab for 2010-2018 are now available at https://publications-affiliated.scilifelab.se.

Facility management systems: A facility management system (scheduling, invoicing, pricing, operational management etc) is in procurement through KI, and should be available later in 2019. KI core facilities will be required to use it, but SciLifeLab facilities will be given access to it through Data Centre.

Data repository: A data repository system is in procurement, for SciLifeLab facilities and researchers to publish datasets, documents, presentations, or any other material they wish to make public. This system will complement the publishing of datasets in public raw data repositories, at the EBI or NCBI.

Data management plans: It is becoming more and more important to set up good data management plans, with an increasing number of funders requiring this. It’s also a very good help for projects to thinking through their IT needs and costs early on. We are encouraging SciLifeLab facilities to support your users with data management plans, and for any facility wishing to do so, we can help you with template configuration and software systems to manage such plans.

Data delivery portal (in development): A Data delivery portal, to primarily provide cloud based storage for data delivery for facilities and their users, is being developed. Other services relating to interaction between facility and user will be provided through this platform, including support for data management plans and user surveys. The project group also consists of members of several facilities.

SweFreq database: Developed by NBIS and now also with the Data Centre, this database stores allele frequency data from Swedish genomic datasets. It can be accessed at https://swefreq.nbis.se. If you have a genomic dataset that you wish to add to this service, please contact swefreq@scilifelab.se.

Data helpdesk: If you or your users have any questions regarding IT systems or data management, do not hesitate to contact us at datacentre@scilifelab.sePlease also regularly check our web pages, https://www.scilifelab.se/data/.

Merry Christmas and a Happy New Year!

SciLifeLab Data Centre