Weekly Brief, 31 October 2022

This week's highlights

Creating impact through knowledge exchange in ELIXIR

ELIXIR creates value by sharing expertise, knowledge and mentoring through a multitude of formal and informal networks. Our latest news release uses the Galaxy Community as an example to showcase the strength and reciprocity of the ELIXIR network and the impact of ELIXIR training and knowledge sharing.

Read the news

Sixth Show & Tell: ELIXIR Netherlands case study and experience-sharing based on national funders report

16 December 2022 | 14.00 CET

Celia van Gelder and Rob Hooft from ELIXIR Netherlands will present an update on their impact case study as well as share experience on a recent request for information from a national funder. 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

New ELIXIR Gateway Area on F1000

ELIXIR Community white papers Gateway area has been launched! If you would like to add your paper to the new ELIXIR Gateway Area its quick and easy to upload via the ELIXIR Gateway (and you get a DOI); please mark the 'ELIXIR Community white papers' when submitting your article.

Explore ELIXIR F1000 Gateway

Recommended reads

The Quest for Orthologs orthology benchmark service in 2022

An ELIXIR | EMBL-EBI paper

The Orthology Benchmark Service is the gold standard for orthology inference evaluation, supported and maintained by the Quest for Orthologs consortium. It is an essential resource to compare existing and new methods of orthology inference (the bedrock for many comparative genomics and phylogenetic analysis) over a standard dataset and through common procedures. The Quest for Orthologs Consortium is dedicated to maintaining the resource up to date, through regular updates of the Reference Proteomes and increasingly accessible data through the OpenEBench platform. For this update, we have added a new benchmark based on curated orthology assertion from the Vertebrate Gene Nomenclature Committee, and provided an example meta-analysis of the public predictions present on the platform.

Read more

Motor evoked potentials for multiple sclerosis, a multiyear follow-up dataset

An ELIXIR-Belgium paper

Multiple sclerosis (MS) is a chronic disease affecting millions of people worldwide. Through the demyelinating and axonal pathology of MS, the signal conduction in the central nervous system is affected. Evoked potential measurements allow clinicians to monitor this process and can be used for decision support. The authors share a dataset that contains motor evoked potential (MEP) measurements, in which the brain is stimulated and the resulting signal is measured in the hands and feet. The dataset contains 5586 visits of 963 patients, performed in day-to-day clinical care over a period of 6 years. This dataset can be used to explore the role of evoked potentials in MS research and patient care. It may also be used as a benchmark for time series analysis and predictive modelling.

Read more

Updates from Nodes

Update on usegalaxy.fr

New services are available on usegalaxy.fr:

• TIaaS: Training Infrastructure as a Service
  This service allows trainers to reserve resources for their training and track student progress. This service works with the Galaxy Training Network, so slides, tutorials, workflows and videos are already available.
• AlphaFold:
  Its a program that uses neural networks to predict the tertiary (3D) structure of proteins. AlphaFold accepts an amino acid sequence (in Fasta format), then "folds" this sequence into a 3D model.

More information

Registration open: 5th de.NBI Cloud User Meeting

6-7 December 2022 | Forschungszentrum Jlich, Germany

The de.NBI Cloud User Meeting supports the interaction with our growing community. The scope of this meeting includes:

• Talks of experienced users in different research areas
• Workshops for new and already experienced users
• Chance to talk to experts on various cloud computing topics

More information and registration

Updates from Other Initiatives

New EJP RD video on the value chain

EJP RD published a new video produced for ASHG TV which focuses on the value chain: from diagnosis to development of therapies for Rare Diseases. In the video, EJP RD Members highlighted different elements of the EJP RD and future plans of the programme.

Watch the full video here

Call for EOSC Interoperability Framework adoption

Deadline: 13 December 2022 | 04:00 pm CET

In partnership with the Research Data Alliance (RDA), EOSC Future announced a call seeking European consortia or interdisciplinary groups to validate and demonstrate the value of the EOSC Interoperability Framework(EOSC-IF).

More information

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 Events and Conferences

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
 

1-2 Programmers/engineers in Informatics or Bioinformatics

University of Troms

Cancer Genomics Research Assistant

IRB Barcelona

Technical Coordinator

SIB Swiss Institute of Bioinformatics

Research Software Engineer (m/f/d) - SILVA Pipeline

DSMZ

Research Software Engineer (m/f/d) - SILVA Frontend

DSMZ