Weekly Brief, 20 June 2022

This week's highlights

Read about All Hands 2022

ELIXIRs eighth All Hands meeting was a welcome return to an in-person gathering after two years of virtual events. Read a meeting summary and find links to slides, posters and photos.

Highlights from All Hands 2022

ELIXIR Innovation and SME Forum registration opens

22 September 2022 | Barcelona, Spain


The Forum is co-located with ECCB2022 and aims to bring together researchers from large, medium and small companies and academia who work on services for data management and sharing, as well as people involved in national healthcare initiatives.

More information and registration

ELIXIR Communications Group meeting

27 June 2022 | 14:00 - 15:00 CEST | Online


The ELIXIR Communications Group is a forum to bring together those with expertise and interest in communications. Join us for the first in a new series of quarterly meetings.

More information and join the group

New ELIXIR-related paper on Common Workflow Language

A paper about Common Workflow Language (CWL) was published in the June issue of Communications of the ACM. The paper explains CWL standards and how the CWL project achieved its great success via its core principles of community, shared decision making, reuse, and zero cost for participants.

Read more

ECCB 2022 call for posters

Deadline: 30 June 2022


The ECCB2022 Posters Committee invites research posters in any aspect of computational biology to promote lively discussions.

More information

Recommended reads

Selection of data sets for FAIRification in drug discovery and development: Which, why, and how?

A FAIRplus paper

Despite the intuitive value of adopting the Findable, Accessible, Interoperable, and Reusable (FAIR) principles in both academic and industrial sectors, challenges exist in resourcing, balancing long- versus short-term priorities, and achieving technical implementation. This situation is exacerbated by the unclear mechanisms by which costs and benefits can be assessed when decisions on FAIR are made. Scientific and research and development leadership need reliable evidence of the potential benefits and information on effective implementation mechanisms and remediating strategies. In this article, we describe procedures for costbenefit evaluation, and identify best-practice approaches to support the decision-making process involved in FAIR implementation.

Read more

Galaxy workflows for fragment-based virtual screening: a case study on the SARS-CoV-2 main protease

An EOSC-Life paper

This study presents several workflows for protein-ligand docking and free energy calculation for use in the workflow management system Galaxy. The workflows are composed of several widely used open-source tools, including rDock and GROMACS, and can be executed on public infrastructure using either Galaxys graphical interface or the command line. The authors demonstrate the utility of the workflows by running a high-throughput virtual screening of around 50000 compounds against the SARS-CoV-2 main protease, a system which has been the subject of intense study in the last year.





Read more

 

Updates from Nodes

ELIXIR-CONVERGE FAIR hackathon to create lesson plans

29 June 2022 | Online

Help the organisers create lesson plans for life sciences research organisations to advance the FAIR skills of data stewards and researchers.

Read the program
Registration

Two new papers from the Maastricht ELIXIR-NL team

Updates from Platforms

Communities & Platforms - Training gap analysis


We would like your input to help us 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

All Hand's presentation on the Training platform available on Zenodo


Building skills for managing and exploiting data in ELIXIR and beyond
- A FAIR training journey

The FAIRsharing Community Curation Programme launches with an award from the RDA/EOSC-Future Ambassadorship programme

Dr. Allyson Lister is the first ELIXIR and Interoperability Platform member receives the RDA/EOSC-Future Domain Ambassador award. Alison will use these funds to launch the FAIRsharing Community Curation Programme.

Find out more

Updates from Communities

New preprint available online

Galaxy Training: A Powerful Framework for Teaching!

The article presents the latest developments in the Galaxy Training Network project, aimed at facilitating the use of the Galaxy Training materials by educators, and its usage in different learning environments.

Read the article

Survey on MIAPPE

Minimum Information About Plant Phenotyping Experiments (MIAPPE) Steering Committee invite you to share your input and reflect on MIAPPE achievements made over the last three years. The survey will also help to shape MIAPPEs future.

Fill out the survey

Recorded webinar: Scope and vision of AlphaFold

3D BioInfo Communitys first webinar of the series was well received and now the recording is available online to watch.

Watch the recording

Reminder: Invitation to join the ELIXIR Metabolomics Community F2F/hybrid Meeting

22 & 23 June 2022 | Hybrid - Valencia, Spain

Complete the registration form no later than 22 June for virtual attendance. For invited attendees, you will need to register to confirm your invitation and share additional details.

Find out more and register now

Updates from Focus Groups

Survey on synthetic data for Life Sciences community

The ELIXIR Machine Learning Focus Group is distributing a survey about synthetic data for the LIfe Sciences community. The goal is to identify how the bioinformatics community uses synthetic data in the scope of Machine Learning and their needs on synthetic datasets to advance their research.

Fill out the survey

Reminder: Join The Biodiversity Focus Group embarked on the journey to become an ELIXIR Community

Next monthly TC: 22 June 2022 | 16:00 CEST

The ELIXIR Head of Nodes recently agreed to support the transition of the Biodiversity Focus Group to become a Community. ELIXIR colleagues are invited to join the group and contribute to its further development by signing up to the Community mailing list on the website. For further information, get in touch with Katharina Heil.

Join this group

Updates from Other Initiatives

New website launch and call to access resources

The ISIDORe website is officially online with the launch of the first call to access the ISIDORe resources dedicated to SARS-CoV-2 and COVID-19.

The call is multidisciplinary and open to all scientists both from academia and the private sector, including the partners of the ISIDORe consortium.

More information

Application open: mentoring and training programme
for Open Science ambassadors

Deadline: 7 July 2022

This program will provide a unique opportunity for individuals and teams to integrate best practices for open and reproducible research in new or ongoing projects.

More information

The assessment of research results in EU Framework Programmes for Research

PPMI, a research and consultancy, has recently completed the study commissioned by the Directorate-General for Research and Innovation of the European Commission Assessing the reproducibility of research results in EU Framework Programmes for Research.

Read the report

Register to the final dissemination webinar

Investigating the long-term impact of open sharing commitments

The Wellcome Trust impact report on their open sharing commitment on which ELIXIR consulted has now been published.

Read the report

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


ELIXIR 3D BioInfo webinars: Impact of AlphaFold on teaching and training in life sciences
21 June 2022 | 13:30 - 15:00 BST | Online

ELIXIR Engagement AAI call

22 June 2022 | 10:00-11:00 CEST | Virtual

Research Data Management and Data Management Plan

23-24 June 2022 | Lausanne, Switzerland


Show and Tell - ELIXIR Strategic Implementation Study on Impact
24 June | 11:00-12:00 CEST | Virtual


ELIXIR 3D BioInfo webinars: Impact of AlphaFold on research and development
28 June 2022 | 13:30 - 15:00 BST | Online

Summer school on genetic epidemiology

29 June - 2 July 2022 | Davos, Switzerland

Training course on facilitation and moderation skills

7-8 July 2022 | Hague, Netherlands

ELIXIR Events and Conference

BY-COVID: National-level experiences of pathogen-related data sharing in pandemic times and beyond

23 June 2022 | 13-15:00 CEST | Online

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
 

Software developer

VIB

Scientific Relations Manager (50-60%)

Institut Suisse de Bioinformatique

Bioinformatician / software developer

Masaryk University and FNUSA-ICRC