News and announcements

Take part in a Data Management Practices survey

Submitted by Heleri on

We are inviting all Estonian research community members to take part in a survey about the current data management practices in Estonia.

The survey will remain open until at least the end of July (July 31st, 2021) and should take approximately 30 minutes to fill out. We will randomly pick a couple of lucky people who have participated in the survey to win a goodie bag from us. The survey can be found here: https://survey.ut.ee/index.php/752887?lang=en 

For the last couple of years, data management has gained more and more attraction, both in Estonia and Europe. The Data Management Plan is becoming mandatory for European projects. Similarly, it is recommended to keep your research and research outputs as open as possible.  One of ELIXIR’s goals is to help standardise life science data management across Europe, although this is not just needed for life sciences but all the fields of science.

I, Heleri Inno, am a new data manager for ELIXIR Estonia at the University of Tartu, Institute of Computer Science. Our goal at ELIXIR Estonia is to standardise and help researchers manage their data, no matter the field. For this, we plan to start providing researchers with more specific guides (lectures, courses, posters) on making your data (and work) more open and reusable by others. However, we need to know the current data management practices in Estonia and what help is required. To get the baseline, we created a survey to get to know the current data management practices and opinions on this subject in Estonia. A somewhat similar job has been done previously, so we will additionally use this survey to compare how the data management practices have changed over the years.

We would be most grateful if you could find some time in your busy schedule to fill out the survey. Filling out the survey should take approximately 30 minutes. No question is mandatory, and there are also extra spaces so you can give your opinion on the subject. The survey is open for all the research community members in Estonia until at least the end of July (July 31st, 2021).

Also, to show our gratitude for participating in the survey, we will randomly choose some lucky winners to win goodies from ELIXIR Estonia and the University of Tartu. There will be an additional link at the end of the survey, so who wishes to participate in the lottery can do that.

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g:Profiler latest article reached 1000 citations!

Submitted by elixir on

The g:Profiler team from ELIXIR Estonia is celebrating. The latest update article of our g:Profiler enrichment analysis and gene list conversion toolkit published in NAR on July 2nd, 2019 reached 1000 citations on July 27th 2021. We are truly happy that we have had a chance to help so many reasearchers across the world in carrying out their research. 

g:Profiler https://biit.cs.ut.ee/gprofiler/ most popular tools are GOSt for enrichment analysis and g:Convert for translating between different gene/protein/transcript/probe identifiers. Both of these tools receive millions of queries per year. We also have g:Orth that enables translating identifiers between species and g:SNPense that annotates provides for SNP RS-ids chromosomal coordinates and predicted variant effect for SNPs that lie in protein coding genes.

g:Profiler relies heavily on ENSEMBL and ENSEMBL Genomes databases and we follow their data relase cycle. This ensures that our users have always the latest data at their service. g:Profiler includes data for 714 different species and for the largest organisms we support more than 200 different identifier types. We have kept all data releases since summer 2011 and these are available from https://biit.cs.ut.ee/gprofiler/page/archives

We also support custom datasets for researchers whose organisms are not supported by ENSEMBL or ENSEMBL Genomes or Wormbase Parasite or who want to do enrichment analysis using their own knowledgebase that goes beyond the Gene Ontology, KEGG, Reactome, Wikipathays, Transfac, miRTarBase, Human Phenome Ontology, Human Protein Atlas, CORUM that are already included in g:Profiler.

We are welcome user requests and development ideas either out our website or directly to our biit.support@ut.ee email. Your feedback helps us to keep improving and providing the best service for the life science community!

 

 

 

 

 

 

 

How to manage your data well? - Helis Academy can teach you how

Submitted by Heleri on

What is data management? How to do it well? How to write a data management plan? If you have these questions, then Helis Academy can help you out. They provide a variety of courses and seminars about data management and data stewardship. 

On 17th and 18th of June, they will host a 2-day event, introducing their academy and Data Analysis and Data Stewardship (https://helisacademy.com/en/data-analysis-stewardship)  project with one of its aims to increase the industry readiness in Health and LifeSciences by developing training programmes in line with the knowledge and skills that are required in the industry. Helis is organizing 2 half-day events, filled with informative, interactive sessions:

Day 1: Symposium (17 June 2021)  9.30-13.00 CEST, Online You’ll learn more about the Helis project, the cross-border collaboration programme, how careers in life sciences are stimulated and the Helis domains during keynotes and interactive parallel sessions.  More info: https://helisacademy.com/en/closing-event/symposium

Day 2: Virtual company visits (18 June 2021) 8.30-13 CEST Curious to learn more about the life sciences sector in the Netherlands and Flanders? Join the virtual company visits on 18 June to find out more about the diverse job opportunities and career paths that the life sciences domains offer.  More info: https://helisacademy.com/en/closing-event/student-programme

The data analysis and stewardship pillar of Helis  is organized by DTL/ ELIXIR-NL, VIB/ELIXIR-Belgium, Maastricht University and Eindhoven University of Techonology (TU/e). 

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