This week's highlights
ELIXIR's collaboration with the Metaproteomics Initiative
ELIXIR is collaborating with the Metaproteomics Initiative to advance multi-omics microbiome research through their global network of metaproteomics experts. The Initiative promotes knowledge sharing, education, and standardisation in the field. This collaboration allows ELIXIR to tap into the Initiatives expertise to better integrate metaproteomics into microbiome studies for a more comprehensive view of microbiome functioning.
More about the Metaproteomics Initiative
Read the Metaproteomics Initiative white paper
Recommended reads
Making PBPK models more reproducible in practice
An ELIXIR Systems Biology Community paper
In this paper, the authors tackle this challenge for physiologically-based pharmacokinetic (PBPK) models, which represent the pharmacokinetics of chemicals following exposure in humans or animals. The paper summarises recommendations for PBPK model reporting that should apply during model development and implementation. To illustrate these recommendations, the authors present an original and reproducible PBPK model code in MATLAB, alongside an example of MATLAB code converted to Systems Biology Markup Language format using MOCCASIN. This work is the result of an interdisciplinary collaboration involving the ELIXIR systems biology community. More interdisciplinary collaborations like this would facilitate further harmonization and application of good modeling practices in different systems biology fields.
Read more
SIEGA provides a One Health regional resource connected with the clinic
An ELIXIR CONVERGE paper
This paper aims to demonstrate the utility of a collaborative tool, the SIEGA, for monitoring infectious diseases across domains, fostering a comprehensive understanding of disease dynamics and risk factors, highlighting the pivotal role of One Health surveillance systems. The SIEGA application is a Laboratory Information Management System that allows customising reports, detect transmission chains, and promptly alert on alarming genetic similarities. By facilitating precise disease control strategies and antimicrobial resistance management, SIEGA enhances global health security and reduces the burden of infectious diseases. The integration of health data from humans, animals, and the environment, coupled with advanced genomics, underscores the importance of a holistic One Health approach in mitigating health threats.
Updates from Nodes
Biological networks: topological analysis and visualisation using Cytoscape software
10 December 2024 | 9:00 - 13:-00 CET | Online
This course will use the open-source software Cytoscape and its apps to extract protein-protein interaction data, build the network, visualise and explore it in order to detect topological properties, find potential topological clusters and perform functional network enrichment analysis.
More information
Versatile Trusted Research Environments: An approach for Switzerland
The BioMedIT TRE has been in production since 2018, bringing together ETH Zurich, the Swiss Institute of Bioinformatics, the University of Basel and the University of Lausanne to deliver a federated, versatile TRE service. This article is an experience sharing of TREs in Switzerland and provides suggestions in delivering a TRE network.
Read more
2025 SIB Bioinformatics Awards - Call for entries
The SIB Bioinformatics Awards were created by SIB Swiss Institute of Bioinformatics in 2008 to shed light on excellence, diversity and innovation in the fields of bioinformatics and computational biology. The 2025 SIB Bioinformatics Awards are now welcoming international applications in three categories: PhD Paper, Early Career and Innovative Resource.
Find out more
Updates from other initiatives
EVERSE network launched
The EOSC-EVERSE project is creating a network of research software excellence. It aims at connecting professionals from research software engineering (RSE) as well as industry and policymakers from all science cluster communities to work on curating and preserving RSE good practices.
The network is now open for anyone to join and/or contribute
Call for Experts Technical design and development for the MOMSI Landscape Dashboard
Deadline: 30 November 2024
The Landscape Dashboard will track and visualise multi-omics standards to promote transparency, version control, and open access for stakeholders. The project aims to support the advancement of FAIR data principles within the multi-omics community. The MOMSI Group requires new technical services to have this resource transformed into an interactive, web-based dashboard resource.
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 Estonia: Prompting 101 - A beginners guide to communicating with LLMs
20 November 2024 | 8:00 - 11:00 CET | Tartu, Estonia
ELIXIR Spain: Research Data Management for advanced users
27 - 28 November 2024 | Barcelona, Spain
de.NBI training course: DNA methylation: Design to discovery
5 & 6 December 2024 | Saarbrcken, Germany
de.NBI training course: Differential analysis of quantitative proteomics data using R
12 - 13 December 2024 | 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
EMBL-EBI course: Cancer genomics and transcriptomics
12 - 16 May 2025 | Online
EMBL-EBI course: Introduction to metabolomics analysis
20 - 23 May 2025 | EMBL-EBI, UK
ELIXIR Events and Conferences
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
ELIXIR Tools Platform F2F meeting (hybrid) 2024
26 - 27 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