ELIXIR Estonia
The purpose of ELIXIR is to construct and operate a sustainable infrastructure for biological information in Europe to support life science research and its translation to medicine and the environment, the bio-industries and society. These resources include databases, software tools, training materials, cloud storage and supercomputers.
The goal of ELIXIR is to coordinate these resources so that they form a single high quality infrastructure. This coordinated infrastructure makes it easier for researchers to find and share data, analyse their experiments, exchange knowledge, and agree on best practices.
Estonia joined ELIXIR as a full member in December 2013. The Estonian node focuses on developing and maintaining software tools and databases, linking of bioinformatics and biobanking, and last but not least, training researchers across borders.
Estonian ELIXIR Node is led by University of Tartu. Other partners are Tallinn University of Technology, National Institute for Physics and Biophysics, Tallinn University, and Estonian University of Life Sciences.
Autumn semester 2024 free ELIXIR courses in Estonia
- 17.10.2024 - Tableau for beginners (F2F, Tartu) - CANCELLED
- 23.10.2024 - Basic LINUX/Unix workshop (F2F, Tartu) - Registration open
- 30.10.2024 - Laboratory documentation with Markdown (Zoom) - Registration open
- 6.11.2024 - Version Control with Git (F2F, Tartu) - Registration open
- 14.11.2024 - Getting organised with Notion (F2F, Tartu) - Registration open
- 20.11.2024 - Prompting 101 - A Beginner’s Guide to Communicating with LLMs (F2F, Tartu) - Registration open
Latest news and announcements
If you would like to be notified about the events, trainings and workshops running by ELIXIR Estonia, consider subscribing to the announcements mailing list
Empowering Life Sciences Research: ELIXIR Estonia poster
This poster offers an overview of the work done by the ELIXIR Estonian node, both current and previous. It outlines the focus of our work and provides insights into the training conducted by the node, the various tools and services developed, and collaborations with other countries.
Poster is also available for viewing in Zenodo repository: https://doi.org/10.5281/zenodo.13847963
BY-COVID project wrap-up and success stories
The BeYond-COVID (BY-COVID) project aimed to provide extensive open data on SARS-CoV-2 and other infectious diseases, emphasizing the mobilization of raw viral sequences to monitor the spread of variants. To ensure global collaboration, it enabled federated data analysis, managed metadata, and facilitated long-term cataloguing. Success stories can be read here, on page 16 is project lead by University of Tartu: Infectious Diseases Toolkit.
Uku Raudvere Delivers Talk on the Role of Research Software Engineers at Digit 2024
On October 4th, 2024, the Digit 2024 event in Tartu brought together leaders in technology and academia to celebrate the best of the software domain. Among the standout speakers was ELIXIR Estonia’s own Uku Raudvere, who delivered an insightful presentation on “The Impact of Scientific Programmers in Academia”.
Webinar: Interactive Visualization with Python
This intermediate level course is addressed to biologists, bioinformaticians, and other computational scientists which use python in their research and would like to enhance their data exploration and presentation capabilities with interactive plots.
Registration deadline: 22 October 2024
Date: 12 November 2024
Webinar: Training Clinic
We will delve into “Time Management in Training Courses”. Discover effective strategies and proven techniques to enhance your punctuality and productivity. Whether you’re an instructor or a participant, mastering time management can significantly improve your training experience.
Date: 23 october 2024
Conference in Helsinki, Finland: Finnish Nordic Computational Biology
The event is tailored for Bioinformaticians and Computational Biologists. It is an excellent opportunity for researchers and students working with biological data who are keen on exploring new bioinformatics methods, workflows, or challenges.
Registration deadline: 26th October 2024
Date: 7-8 November 2024
Webinar: Data Analysis and Representation in Python
This course is addressed to life scientists, bioinformaticians and researchers who are familiar with writing Python code and core Python elements and would like to explore if further in their daily data wrangling and exploration tasks.
Registration deadline: 28 October 2024
Online course: Diving into deep learning - theory and applications with PyTorch
This course will not make the participant an absolute expert in the complex and dynamic world of Deep-Learning. Still, it will aim to “break the ice” through the explaination and implementation of simple yet concrete, deep-learning models using the PyTorch library. Participants will be introduced to the basic building blocks of deep-learning models and how the main parameters are tuned and monitored to ensure the training of large models. This course is aimed at PhD students, post-docs and researchers in life sciences who already know about Machine Learning and would like to discover and start practising Deep Learning with PyTorch.
Application deadline: 31 October 2024
Date: 07 - 08 November 2024
Virtual workshop: GPU Programming. Why. When. How
This workshop is based on a multilateral collaboration between GPU programming specialists from the Nordic countries. It is meant to help both software developers and decision-makers navigate the GPU programming landscape and make more informed decisions on which languages or frameworks to learn and use for their projects.
Date: 12-14 November 2024
Virtual course by EMBL-EBI: Single-cell RNA-seq analysis with Python
This course is aimed at wet-lab researchers who are generating, planning on generating, or working with single cell RNA sequencing data.
Registration deadline: 17 November 2024
Date: 17 - 21 February 2025
Virtual Forum: AI Ventures in the Life Sciences - Challenges, Needs, and Opportunities
This year’s 5th Annual Meeting of the de.NBI Industrial Forum will take place online. The Annual Meeting is an opportunity to meet and discuss current academic and industrial topics of interest. The 2024 edition of the Annual Meeting is headlined:“AI Ventures in the Life Sciences - Challenges, Needs, and Opportunities”
Date: 19 November 2024
Online course: Enrichment Analysis
This course is for biologists who are eager to perform functional annotation of a set of differentially expressed genes.
Application deadline: 19 November 2024
Date: 29 November 2024
Virtual 2 Day Workshop SABIO-RK and FAIRDOMHub / FAIRDOM-SEEK
SABIO-RK (https://sabiork.h-its.org/) is a manually curated database for biochemical reactions and their kinetic properties. FAIRDOMHub (https://fairdomhub.org/) is a free research data management platform built upon the FAIRDOM-SEEK software (http://fairdomseek.org). FAIRDOM-SEEK contains specific features for systems biologists for data and model management. This is an introductory course for SABIO-RK and FAIRDOMHub. You have the option to participate in either one or both of the courses.
SABIO-RK: 25-NOV-2024 2:00 pm - 5:00pm (CET / UTC +1)
FAIRDOM-SEEK: 26-NOV-2024 2:00 pm - 6:00pm (CET / UTC +1)
Course in EBI, UK: Gene-environment interactions in human health and disease
This introductory course is aimed at MRes/PhD students, researchers, clinicians, and other professionals working in the fields of genomics, exposomics, epidemiology, or toxicology with an interest in understanding how interactions between genes and the environment underlie human phenotypes. The course will cover the underlying concepts, computational resources, and computational modelling methods available to investigate interactions between genes and the environment (including social, biological, and physical exposures).
Registration deadline: 15 December 2024
Date: 17 - 21 March 2025