Weekly Brief, 29 August 2022

This week's highlights

ECCB ELIXIR track programme


The 21st European Conference on Computational Biology (ECCB2022) will take place in Sitges (Barcelona, Spain) from 12 - 21 September 2022.

This year, ELIXIR will be presenting at the ECCB conference with the ELIXIR Communities Track on Monday and Tuesday 19 - 20 September, and a workshop on Sunday 18 September.

Sign up for the workshop via the official ECCB registration process

Fifth Show & Tell: Impact of international activities on national level

07 October 2022 | 10am CEST

Johanna Trnroos from ELIXIR Finland will present on Impact of international activities on the national level. This event is part of the ELIXIR Strategic Implementation Study on Impact, in collaboration with ELIXIR-CONVERGE WP4. All participants are welcome to join, especially those involved in ELIXIR and interested in impact evaluation.

Register now

Recommended reads

Approaches in Gene Coexpression Analysis in Eukaryotes

An ELIXIR-GR paper

Genes whose expression levels rise and fall similarly in a large set of samples, may be considered coexpressed. Gene coexpression analysis refers to the en masse discovery of coexpressed genes from a large variety of transcriptomic experiments. The type of biological networks that studies gene coexpression, known as Gene Coexpression Networks, consist of an undirected graph depicting genes and their coexpression relationships. Coexpressed genes are clustered in smaller subnetworks, the predominant biological roles of which can be determined through enrichment analysis. By studying well-annotated gene partners, the attribution of new roles to genes of unknown function or assumption for participation in common metabolic pathways can be achieved, through a guilt-by-association approach. In this review, the authors present key issues in gene coexpression analysis, as well as the most popular tools that perform it.

Read more

Community-driven ELIXIR activities in single-cell omics


An ELIXIR opinion paper

Single-cell omics (SCO) has revolutionized the way and the level of resolution by which life science research is conducted, not only impacting our understanding of fundamental cell biology but also providing novel solutions in cutting-edge medical research. The rapid development of single-cell technologies has been accompanied by the active development of data analysis methods, resulting in a plethora of new analysis tools and strategies every year. Such a rapid development of SCO methods and tools poses several challenges in standardization, benchmarking, computational resources and training. These challenges are in line with the activities of ELIXIR. Here, the authors describe the current landscape of and the main challenges in SCO data, and propose the creation of the ELIXIR SCO Community, to coordinate the efforts in order to best serve SCO researchers in Europe and beyond.


Read more

Updates from Nodes

Personalised medicine against cancer and viruses


ELIXIR Finland published a new article on their website. The article Personalised medicine against cancer and viruses" is about The PerMedCoE project and the goal to develop tools that can be used in precision medicine.

Read more

de.NBI & ELIXIR-DE new brochure


de.NBI & ELIXIR Germany present their new brochure entitled Development and operation of the federated de.NBI Cloud. de.NBI Cloud are key partners in the ELIXIR Compute Platform. This brochure showcases the power, strength, and range of the de.NBI Cloud for the life science community by providing the ability to unlock research data and collaborate across the ecosystem.

Read the brochure

BioHackathon Germany 2022

12-16 December 2022


ELIXIR Germany and de.NBI are planning to run a BioHackathon Germany 2022 in Lutherstadt Wittenberg at Leucorea.

More information

Updates from Platforms

Reminder: Training Gap Analysis

Deadline: 16 September 2022

The ELIXIR Training platform would like your input to help identify potential gaps in current training in Life Sciences across Europe, and to continue taking measures to fill the gaps identified with appropriate training.

Fill out the survey

Updates from Focus Groups

ELIXIR Europe landscape analysis of RDA involvement

Deadline: 19 September 2022

Is the Research Data Alliance (RDA) a new acronym to you? Or are you already an RDA pro and heavily engaged in RDA activities? The ELIXIR RDA Activities Focus Group are conducting a landscape analysis survey of ELIXIR members and their extent of engagement in the RDA. It takes approximately 5 minutes to complete and contains useful links and information on the RDA and Focus Group throughout.

Fill out the survey

Updates from Other Initiatives

ERGA initiative stakeholders survey

Deadline: 30 September 2022

The aim of the survey is to collect information about relevant stakeholders and their potential interest in applied genomics. The questionnaire will take approximately 10-15 minutes to complete and will be open until 30 September 2022.

Fill out the survey

EJP-RD BYOOD Workshop

17-18 November 2022 | Nijmegen, Netherlands

Pre-registration deadline: 2 September 2022


The Bring Your Own Omics Data workshop (BYOOD) workshop aims to help you optimising and integrating your omics data, initiating network analysis, and continue collaborations with the data analysis team.

Please complete the pre-registration form by the 2 September 2022

GA4GH 10th Plenary

22-23 September 2022 | Barcelona, Spain

Join the Global Alliance for Genomics and Health (GA4GH) 10th Plenary in Barcelona, co-hosted by Bioinformatics Barcelona, the meeting unites the genomics and health community for two days of conversation on data sharing. Attendees will have the opportunity to learn about GA4GHs technical standards, policy frameworks, and implementations.

Sign up now

Upcoming ELIXIR events & webinars

ELIXIR Training Courses & Webinars

The ELIXIR TeSS portal has a variety of interesting events and courses organised by the ELIXIR Nodes. For more, visit TeSS portal


SIB: NGS - Genome variant analysis

26-27 September 2022 | Bern, Switzerland

SIB: Introduction to Machine Learning with Python
3-4 October 2022 | Virtual

SIB: Protein sequence databases and sequence annotation at UniProtKB
14 October 2022 | Virutal

 

Data-Interoperability Platforms Hybrid F2F 2022
28-30 November 2022 | Geneva, Switzerland

ELIXIR Events and Conference

ELIXIR Innovation and SME Forum: Data driven innovation in healthcare diagnostics
22 September 2022 | 10:00 to 19:00 CEST | Barcelona, Spain


ELIXIR Bioinformatics Industry Forum: Enabling Ecosystems for Machine Learning in the Life Sciences
11 October 2022 | 10:00 to 16:00 CEST | London, UK

BioHackathon Europe

7-11 November 2022 | Paris, France

Job vacancies

All vacancies are also published on the ELIXIR website (also including those from industry). If you need our help communicating your new open positions, you can submit a job advertisement and it will automatically appear on our newsletters. Go to our vacancy page to submit a job
 

Research associate (data scientist)

Leibniz Institute of Plant Biochemistry

Research associate (computational metabolomics)

Leibniz Institute of Plant Biochemistry

Senior Scientific Officer - Cancer Data

ELIXIR Hub

Project Manager Human Genomics Data

VIB

Team Leader - Health Data Research

Barcelona Supercomputing Center (BSC-CNS)