This week's highlights
Austria and Romania join the ELIXIR-STEERS project
Institutions from Austria and Romania have become beneficiaries in the ELIXIR-STEERS project, taking the number of countries represented in the project to 25. The new countries join eight months into the project, which lasts three years.
Read the news
ELIXIR connects with the bioinformatics community at ECCB 2024 in Turku
On 16-20 September 2024, ELIXIR was in Turku, Finland for the 22nd European Conference on Computational Biology, organised by the University of Turku and the IT Center for Science. As a sponsor of the event, ELIXIR held a Community track programme, two workshops and a dedicated booth to share information about ELIXIR with bioinformaticians and computational biologists from around the world.
Read the news
Recommended reads
Definition of the effector landscape across 13 phytoplasma proteomes with LEAPH and EffectorComb
An ELIXIR Italy paper
'Candidatus Phytoplasma' genus, a group of fastidious phloem-restricted bacteria, can infect a wide variety of both ornamental and agro-economically important plants. Phytoplasmas secrete effector proteins responsible for the symptoms associated with the disease. Identifying and characterising these proteins is of prime importance for expanding our knowledge of the molecular bases of the disease. LEAPH is a machine learning ensemble predictor used in this research to identify 15 out of 17 known experimentally validated effectors belonging to the three classes. To help the selection of novel candidates for biological validation, the reserachers applied the Self-Organising Maps algorithm and developed a Shiny app called EffectorComb.
Read more
The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update
A Galaxy paper
Galaxy is deployed globally, predominantly through free-to-use services, supporting user-driven research that broadens in scope each year. Users are attracted to public Galaxy services by platform stability, tool and reference dataset diversity, training, support and integration, which enables complex, reproducible, shareable data analysis. Galaxy tool capabilities are progressing in two strategic directions: integrating general purpose graphical processing units access for cutting-edge methods, and licensed tool support. The Galaxy Training Network portfolio has grown in both size, and accessibility, through learning paths and direct integration with Galaxy tools that feature in training courses.
Read more
Updates from Platforms
ELIXIR Tools Platform 2024 F2F/hybrid meeting
26 - 27 November 2024 | Manchester, UK
The ELIXIR Tools Platform annual hybrid meeting will include presentations and discussions in particular focused on the ongoing ELIXIR Scientific Programme 2024-28 with a highlight on the Research Software Ecosystem (RSEc).
Draft agenda and registration link
Updates from Communities
ELIXIR Galaxy Community: Call for new co-lead
Deadline: 31 October 2024
The ELIXIR Galaxy Community is looking for one new co-lead to join the Community leadership team (Bjrn Grning & Nicola Soranzo). Candidates should submit a short statement of their background and what they believe they will bring to the role.
A big thank you to Frederik Coppens for his work as a co-lead and we look forward to his ongoing contribution to the Community.
For any questions or nominations, please contact Mihail Anton or Katharina Heil.
More information (including timeline and self-nomination details)
ELIXIR Metabolomics Community: Call for new co-lead
Deadline: 31 October 2024
The ELIXIR Metabolomics Community is looking for one new co-lead to join the Community leadership team (Maria Klapa & Steffen Neumann). Candidates should submit a short statement of their background and what they believe they will bring to the role.
A big thank you to Claire O'Donovan for her work as a co-lead and we wish her all the best for her retirement.
For any questions or nominations, please contact Deepti Jaiswal Kundu
More information (including timeline and self-nomination details)
ELIXIR Proteomics Community: Call for new co-lead
Deadline: 31 October 2024
The ELIXIR Proteomics Community is looking for one new co-lead to join the Community leadership team (Juan Antonio Vizcano & Lennart Martens). Candidates should submit a short statement of their background and what they believe they will bring to the role.
A big thank you to Oliver Kohlbacher for his work as a co-lead in the past.
For any questions or nominations, please contact Deepti Jaiswal Kundu
More information (including timeline and self-nomination details)
Single-Cell Omics Community training course Spatial omics data analysis
21 - 24 January 2025 | Lausanne, Switzerland
Registration deadline: 1 November 2024
This course will delve into the cutting-edge field of Spatial Omics, focusing on Spatially-Resolved Transcriptomics technology which provides unprecedented insights into the spatial organization of gene expression within tissues.
More information and registration
Updates from other initiatives
Europe PMC open access week webinar Steps to a thriving open software project
23 October 2024 | 16:30 - 17:30 CEST | Online
Europe PMC is holding an interactive webinar on Open Access week to dive deep into the benefits and processes of open source software development. Join the speakers in discussions around their experiences of creating and re-using open source software and get ready to contribute your thoughts and questions to the conversation.
More information and registration
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 Estonia: Laboratory documentation with Markdown
30 October 2024 | Tartu, Estonia
ELIXIR Estonia: Version control with Git
6 November 2024 | Tartu, Estonia
de.NBI training course: How to efficiently access the data of BacDive, BRENDA, LPSN, SILVA and more
11 November 2024 | 14:00 - 16:00 CET | Online
SIB course: Data analysis and representation in Python
11 November 2024 | Online
SIB course: Interactive visualization with Python
12 November 2024 | Online
SIB course: NGS - Quality control, alignment, visualisation
20 - 22 November 2024 | Bern, Switzerland
BioSB course: Integrated modelling and optimisation
9 - 13 December 2024 | Wageningen, the Netherlands
de.NBI training course: Differential analysis of quantitative proteomics data using R
12 - 13 December 2024 | Online
SIB course: Cancer variant analysis
13 December 2024 | Online
EMBL-EBI course: Introduction to RNA-seq and functional interpretation
24 - 28 February 2025 | Online
EMBL-EBI course: Applications for gene-environment interactions in human health and disease
17 - 21 March 2025 | EMBL-EBI, UK
EMBL-EBI course: Microscopy data analysis: machine learning and the BioImage Archive
31 March - 4 April 2025 | Online
ELIXIR Events and Conferences
BioHackathon Europe 2024
4 - 8 November 2024 | Barcelona, Spain
ELIXIR Federated Human Data Community day
19 November 2024 | Lisbon, Portugal
ELIXIR Interoperability Platform F2F meeting (hybrid) 2024
25 - 26 November 2024 | Hybrid - Manchester, UK
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