This week's highlights
We're hiring a new Industry Officer
Application deadline 3 November
Our Industry Officer, Katharina Lauer, has been covering two portfolios since the pandemic started: our industry activities and the scientific coordination of our COVID-19 activities. In the future Kathi will change roles to work fully on coordinating our scientific activities in the COVID-19 domain, including scientific coordination of the BY-COVID project.
Therefore, we're looking for an enthusiastic new team member to join us as ELIXIR's Industry Officer. They will be responsible for the industry strategy and overseeing varied activities to bridge the gaps between academia and industry in the life sciences sector. Please share among your networks.
Find out more and apply
We're also looking for a new ELIXIR Communications Officer
Deadline 18 November
Erin will be leaving us to go on maternity leave in February 2022, during which time her contract will end. Therefore, we're looking for another fresh face to join the External Relations team!
Find out more and apply
Register for the B1MG Stakeholder Forum
17 November 2021 | Virtual, free
You will attend a one-day virtual session organised within the B1MG project with three main topics on the agenda:
Knowledge-exchange session to discuss the proof-of-concept for a federated infrastructure to manage genome datasets. Parallel workshops covering several use cases on rare diseases, cancer, common and complex diseases, infectious diseases and industry partnerships. Discussion to align stakeholders views and provide recommendations
Register to attend the meeting
For questions, contact B1MG coordinators
Your help needed! Feedback wanted on our new Impact page
Can you spare a moment to give us feedback on this new page of our website, which aims to collate examples of ELIXIRs impact https://elixir-europe.org/about-us/impact
Please send any feedback to Corinne, corinne.martin@elixir.europe.org
This week is International Open Access Week!
We'll be celebrating with a week-long social media campaign. Please do engage and share your experiences and thoughts. This year's theme is It matters how we open knowledge: building structural equity
Follow the #OAweek to follow what others around the world are doing to promote open access.
Recommended reads
Ready-to-use public infrastructure for global SARS-CoV-2 monitoring
A Nature Biotechnology paper from Galaxy Europe
The COVID-19 pandemic is the first health crisis characterized by large amounts of genomic data. Computational infrastructure can be a bottleneck for data analysis, amplifying global inequalities in ability to track SARS-CoV-2 evolution [...] Here, we present the COVID-19 effort by the Galaxy Project, which pools free worldwide public computational infrastructure, making the analysis of deep sequencing data accessible to anyone while also providing an analytical framework for global pathogen genomic surveillance based on raw sequencing-read data.
Read more...
The Progenetix oncogenomic resource in 2021
An ELIXIR Beacon Implementation Study supported paper
In cancer, copy number aberrations (CNAs) represent a type of nearly ubiquitous and frequently extensive structural genome variations. The Progenetix project, initiated in 2001, curates individual cancer CNA profiles and associated metadata from published oncogenomic studies and data repositories with the aim to empower integrative analyses spanning all different cancer biologies. For the Progenetix resource, continuous data integration, curation and maintenance have resulted in the most comprehensive representation of cancer genome CNA profiling data with 138,663 (including 115,357 tumor) copy number variation (CNV) profiles.
Read more...
Updates from Communities
Register for the 3D-Bioinfo Annual meeting
2 - 4 November 2021 | 13:00-17:00 | Virtual
Registration deadline 1 November
The deadline to register for the 3D-Bioinfo annual meeting is rapidly approaching!
Event details and registration
Updates from Platforms
Register for the joint Data and Interoperability Platform meeting
23-25 November 2021 | Padova, Italy and virtually
Registration deadline this Sunday 31 October 2021
This hybrid meeting will highlight areas of collaboration, plan the future tasks, prepare for 2022-23 deliverables, and discuss the strategic planning of the 2024-28 Scientific Programme.
There is a limit of 30 in-person participants but none for virtual attendees. Please contact Sirarat Sarntivijai for any questions.
Read the programme and register (login required)
Pre-register for Data Management train the trainer event
23-26 November 2021 | Online
This training will include targeted discussions about DM/DMP/DS training challenges at the end of each session. This course is organised by INB/ELIXIR-ES and the Barcelona Supercomputing Center (BSC) in collaboration with ELIXIR-CH and ELIXIR-IT, in the framework of the ELIXIR-CONVERGE project.
Updates from Focus Groups
ELIXIR's RDA focus group invites you to attend the Research Data Alliance 18th Plenary Meeting
3 - 11 November 2021 | Virtual
Early bird registration closes today 25 October
This is a great opportunity to connect with the RDA Focus Group and join our collective effort in highlighting strategic areas to ELIXIR at large! We wish to coordinate ELIXIR representation at the meeting, so would appreciate if you could add your attendance to the planning document
Want to engage in a live conversation? Join the RDA Focus Group Slack channel
Call for nominations to the Biocuration Focus Group Steering Committee
Deadline for submissions 31 October 2021
The Biocuration Focus Group aims to be the open venue for community collaboration and engagement with a clear vision and strategy that reflects the dynamic landscape of global Biocuration activities. We are seeking candidates to join the steering committee. Please submit your nominations by e-mail to sirarat.sarntivijai@elixir-europe.org by 31 October 2021.
Learn more about the Biocuration Focus group
Updates from Nodes
Register for the de.NBI Industrial Forum on Artificial Intelligence
25 November 2021 | 13:00 - 16:30 CET | Virtual, free
This years Annual Meeting of the Industrial Forum will focus on Artificial Intelligence (AI). There will also be additional topics on the National Research Data Infrastructure (NFDI) including projects on Biodiversity and Microbiota. All are welcome to attend.
Find out more and register
Do you use BRENDA? Share your experience!
11 November 2021 | 14:00 CET
de.NBI / ELIXIR-DE will offer a BRENDA user community meeting for a small group discussion with 10-15 regular, active BRENDA users their motivations, requirements, and requests.
Find out more and register
ELIXIR Netherlands share their expertise at a National level
Members of the Dutch ELIXIR node contributed to a national effort on measuring the FAIRness of research organisations, with an accompanying article in the CODATA Data Science Journal.
Read the Do I-PASS for FAIR? paper
Pre-registration open for Data Management train the trainer event
23 - 26 November 2021 | Online
This training will include targeted discussions about DM/DMP/DS training challenges at the end of each session. This course is organised by INB/ELIXIR-ES and the Barcelona Supercomputing Center (BSC) in collaboration with ELIXIR-CH and ELIXIR-IT, in the framework of the ELIXIR-CONVERGE project.
Read the Do I-PASS for FAIR? paper
Updates from other initiatives
Join the Genomics in Health Implementation Forum
16 - 17 November 2021 | Online
The Genomics in Health Implementation Forum (GHIF) aims to support accurate data interpretation, diagnosis, and innovative solutions through global cooperation in data sharing and clinical implementation of genomics. The forum helps initiatives reduce duplication of efforts and promote the collection of compatible clinical genomic data and health information to enable data sharing.
The primary focus is to support the uptake of GA4GH standards and provide real-world insights to the GA4GH Work Streams as they develop new standards to support data sharing.
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
Introduction to qualitative modelling with MaBoSS
18 November 2021 | 15:00-16:00 CET
Train the Trainer for Data Managers and Data Management Trainers
23 - 26 November 2021 | Virtual
Spanscriptomics: Single cell analysis using Galaxy (in Spanish Language)
29 - 30 November 2021 | Virtual
SARS-CoV-2 Data Analysis and Monitoring with Galaxy
1 December 2021 | Virtual
biodata.pt workshop: Computational Structural Biology Tools
21 - 22 December 2021 | 9:00-18:00 WEST
ELIXIR Events and Conferences
3D-Bioinfo Annual Meeting
2-4 November 2021 | 13:00-17:00 | Virtual
BioHackathon Europe 2021
8-12 November 2021 | Hybrid Barcelona, Spain
Workshop: Getting started with impact evaluation
15 Novemeber 2021 | Virtual
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
A permanent position as Senior engineer (Python/Java systems developer)
University of Oslo
Senior engineer position available for Python/Java systems developer
University of Oslo
Postdoctoral fellow (Research Associate)
ELIXIR-Luxembourg / Luxembourg Centre for Systems Biomedicine
Scientific Full-stack Python Developer
ELIXIR-Luxembourg / Luxembourg Centre for Systems Biomedicine
Software Developer
ELIXIR-Luxembourg / Luxembourg Centre for Systems Biomedicine