Platform news

Announcements about the SciLifeLab Data Platform and services hosted on the Platform.

This page displays news relevant to data-driven life science in Sweden, e.g. open calls and large research efforts. It will also show news related to the SciLifeLab Data Platform. For example, we will announce updates on the tools, services, and databases on the SciLifeLab Data Platform.

October 21, 2022
New data highlight added, and other updates

Our latest data highlight, entitled ‘New study shows crossing the salt barrier has shaped the diversity of life’ is based on Jamy et al. (2022). The study examines the evolution of habitat preference across eukaryotes. Specifically, they considered transitions across the ‘salt-barrier’. Their study showed that such transitions were likely key evolutionary events that were integral to creating the eukaryotic diversity we see today. This data highlight was a contribution direct from the life science community, and was written by first author Mahwash Jamy. As with all of our data highlights, the resources from the project are shared as openly as possible and are directly linked in the highlight to improve findability.

We have also been making regular updates to our calls and jobs and events pages. Please check those out to stay up to date on the latest opportunities relevant to data driven life science.

Do you have some data-driven life science research that you’d like to highlight on the portal? Or perhaps you have events/jobs/projects in your group that you’d like to advertise on the SciLifeLab data platform? If so, please fill out the forms on the appropriate pages (e.g. in the data highlights section), or email us at datacentre@scilifelab.se.

October 13, 2022
New data highlight 'GenErode pipeline can compare patterns of genomic erosion using genomic data from historical, ancient and modern samples' added.

Today, we have published a new data highlight on the SciLifeLab Data Platform. This latest highlight, details work on the GenErode pipeline as described in a recent paper by Kutschera et al. (2022). The GenErode pipeline is the first bioinformatics pipeline that can process and analyse ancient, historical, and modern sequencing data from the same species with the aim of generating comparable estimates of genomic erosion indices. Experience with coding with not necessary to work with this pipeline, and all bioinformatics steps are well documented, making it very accessible to users.

Have you completed some data-driven life science research and openly shared the data and/or code? Why not get in touch about having it featured as a data highlight? You can contact us by completing the form in our data highlights section, or emailing us at datacentre@scilifelab.se.

October 6, 2022
New data highlight 'Bayesian deep learning model finds clues about the evolution of open habitats' added.

Our latest data highlight is now live on the SciLifeLab Data Platform. This latest highlight, summarises a recent paper by Andermann et al. (2022). The study explores the evolution and expansion of open grassland habitats. The study uses deep learning models that are trained using information on mammal-plant interactions based on openly available fossil record data.

Have you completed some data-driven life science research and openly shared the data and/or code? Why not get in touch about having it featured as a data highlight? You can contact us by completing the form in our data highlights section, or emailing us at datacentre@scilifelab.se.

October 3, 2022
New service related to the subcellular localisation of proteins and the outcomes of the SubCellBarCode project.

Today, we have launched a new service page related to the SubCellBarCode project. The SubCellBarCode service page is a collation of all of the resources (including tools, web portal, publications, methodologies, etc.) produced as part of the SubCellBarCode project. This page has been produced in close collaboration with those involved in the project and will be updated with new outcomes over time.

The aim of this service page is to facilitate the use of the tools and resources generated within the SubCellBarCode project. The project has shared a significant amount of data, in-depth explanations regarding the methodologies used, and multiple research tools (e.g. R analysis package, visualisation tools). Each of these elements can be accessed from the SubCellBarCode service page. It is hoped that the collation and promotion of these resources will accelerate efforts related to the subcellular localisation of proteins. Such studies are incredibly important, particularly as they have implications in human disease e.g. in cancer.

If you have a tool/dataset/service/set of resources that you think that we should add to our service catalogue, reach out to let us know!

September 29, 2022
New service related to the management of life science research data in Sweden

We are pleased to announce the launch of SciLifeLab RDM (research data management) guidelines. This new resource, developed and maintained in collaboration with NBIS, will act as a knowledge hub for the management of life science research data in Sweden. The resource will be updated and expanded over time, with new features and sections already planned. As always, we encourage you to get in touch with any feedback that you might have on this new service.

If you have a tool/dataset/service/set of resources that you think should be added to our service catalogue, please let us know!

September 2, 2022
New feature added - Recent apps deployed on SciLifeLab Serve displayed on homepage

We have added a new feature that is related to one of our services; SciLifeLab Serve. SciLifeLab Serve is a service for deploying apps (including Shiny and Dash apps) and serving machine learning models (Tensorflow and PyTorch serving). The service is currently in beta testing and is looking for test users.

You will find the 8 most recently deployed public apps at the bottom of the homepage on the SciLifeLab Data Platform. You can click on the app title to go directly to a specific app. Alternatively, you can go straight to SciLifeLab Serve itself to explore more public apps and models, as well as find out how to enquire about becoming a test user.

August 12, 2022
New data highlight 'DNA methylation inherited across generations in water fleas may influence freshwater ecosystems' added.

We’re starting off the post-summer season on the SciLifeLab Data Platform with a new data highlight. This latest highlight, summarises a recent paper by Feiner et al. (2022). The study explored whether epigenetic effects, induced by stressors, could influence freshwater ecosystems long-term. The study focussed in particular on the impact that climate change could have on this threatened ecosystem type.

Have you completed some data-driven life science research and openly shared the data and/or code? Why not get in touch about having it featured as a data highlight? You can contact us by completing the form in our data highlights section, or emailing us at datacentre@scilifelab.se.

July 7, 2022
New data highlight 'Unravelling the assembly of the mitoribosome' added

Check out the latest data highlight added to the SciLifeLab Data Platform. This highlight, entitled ‘Unravelling the assembly of the mitoribosome’, relates to a recent publication by Itoh et al. (2022). The study uses cryo-electron microscopy to understand the mechanisms underlying mitoribosomal assembly.

It is the first data highlight to be drafted by one of the corresponding authors of the original paper - in this case, senior author Prof. Alexey Amunts. If you’re interested in writing a data highlight to promote data-driven life science research that you’ve been involved in, please complete the form in our data highlights section, or email us at datacentre@scilifelab.se.

June 21, 2022
New data highlight 'A deep learning framework to estimate species diversity' added

A new data highlight has been added to the SciLifeLab Data Platform. This latest data highlight, entitled ‘A deep learning framework to estimate species diversity’ considers a recent publication by Andermann et al. (2022). The study explores whether deep learning frameworks can be used to accurately estimate biodiversity, and thus to target conservation efforts.

All of our data highlights can be found in our data highlights section. Why not check out our other highlights too?

Want to suggest a study for us to highlight? Get in touch by filling in the form in our data highlights section, or email us at datacentre@scilifelab.se.

June 17, 2022
New section on calls/jobs/projects related to data-driven life science in Sweden

A new section has been added to the SciLifeLab Data Platform. In our new ‘Calls & Jobs section’, we will show all of the latest funding calls, job listings, and masters thesis opportunities related to data-driven life science in Sweden. You will be able to see the application deadline, location, and basic summary information right on the page. We’ll also provide a link to where you can find out more.

See something we’ve missed? Feel free to get in touch with us to make suggestions for how to improve the page, or to tell us about opportunties that you think should be listed.

June 2, 2022
SciLifeLab Data Platform website launched

Today marks the official launch of the SciLifeLab Data Platform website, which can be found at data.scilifelab.se. The Platform will act as a hub for data-driven life science in Sweden. It will include work on data-driven life science from all those affiliated with a Swedish research institution, not just SciLifeLab. The Platform will incorporate multiple resources (tools, services, and datasets), and highlight relevant news, data, and events. Much more will be added over time, so watch this space.

We invite the the research community to contribute to all sections of the Platform. We welcome their feedback on the current content, as well as their suggestions on what else they would like to see here.

March 10, 2021
SciLifeLab Data Centre to lead work on databases and data support for DDLS

In a recent meeting, the SciLifeLab Board assigned SciLifeLab Data Centre to lead work on databases and data support for the Wallenberg National Program on Data-Driven Life Science (DDLS). SciLifeLab Data Centre will report on this work to the DDLS steering group. A budget of 140 MSEK has been allocated for the support of databases and data support during the first three years of the program.

October 20, 2020
Wallenberg National Program on Data-Driven Life Science (DDLS) announced

The Knut and Alice Wallenberg foundation has announced the Data-Driven Life Science (DDLS) program. Funding for the program comprises 3.1 billion SEK, to be distributed over a period of 12 years. The initiative gives priority to data-driven life science in 4 areas; cellular and molecular biology, evolution and biodiversity, precision medicine and diagnostics, and epidemiology and infection biology.