This week's highlights
ELIXIR communications group meeting - Node communications
9 September 2024 | 14:00 - 15:00 CEST
Our next communications group meeting will be on 9 September 14:00 - 15:00 CEST. This meeting will focus on ELIXIR Nodes communications. Come and learn about comms activities in ELIXIR Nodes with Marilena D'Ambrosio from ELIXIR Italy and Heleri Inno from ELIXIR Estonia. No registration is necessary and the Zoom links are on the agendas.
Meeting agenda and Zoom link
Recommended reads
A mini-review on perturbation modelling across single-cell omic modalities
An ELIXIR supported paper
This research summarises novel single-cell perturbation technologies based on genetic manipulation like CRISPR or compounds, spanning across omic modalities. The authors review a group of computational methods extending from classical statistical inference methodologies to various machine and deep learning architectures like shallow models or autoencoders, to biologically informed approaches based on gene regulatory networks, and to combinatorial efforts reminiscent of ensemble learning. The researchers also assess the challenges that underline single-cell perturbation modelling while pointing towards relevant future perspectives like perturbation atlases, multi-omics and spatial datasets, causal machine learning for interpretability, multi-task learning for performance and explainability as well as prospects for solving interoperability and benchmarking pitfalls.
Read more
AggreProt: a web server for predicting and engineering aggregation prone regions in proteins
An ELIXIR Czech Republic paper
Recombinant proteins play pivotal roles in numerous applications including industrial biocatalysts or therapeutics. Despite the recent progress in computational protein structure prediction, protein solubility and reduced aggregation propensity remain challenging attributes to design. Identification of aggregation-prone regions is essential for understanding misfolding diseases or designing efficient protein-based technologies, and as such has a great socio-economic impact. Here, the authors introduce AggreProt, a user-friendly webserver that automatically exploits an ensemble of deep neural networks to predict aggregation-prone regions in protein sequences. AggreProt efficacy in predicting differential aggregation behaviours in proteins on several use cases, which emphasize its potential for guiding protein engineering strategies towards decreased aggregation propensity and improved solubility.
Read more
Updates from Nodes
An online survey on RDM and FAIR principles for researchers working with sensitive data
Deadline: 30 September 2024
This online survey aims to find out the level of knowledge and understanding researchers who work with sensitive data have about research data management (RDM) and the FAIR principles, and what the incentives and barriers are to good RDM and FAIR practices in research using sensitive health data. The survey will take approximately 20-30 minutes to complete.
Updates from Communities
ELIXIR Biodiversity, Food Security and Pathogens cross-Community workshop
12 September 2024 | 9:00 -13:00 CEST
The ELIXIR Biodiversity, Food Security and Pathogens cross-Community workshop will include presentations, strategy feedback and ELIXIR Communities engagement.
More information and registration
Updates from other initiatives
BioNT Community Event and CarpentryConnect
12- 14 November 2024 | Hybrid - Heidelberg, Germany
The international consortium BioNT is hosting its community event with the second European CarpentryConnect. The communities will meet to network and collaborate under the theme Community-led training beyond Academia on a 3-day event, with sessions in the format of keynotes, workshops, breakout discussions, lightning talks and posters.
More information and registration
Research webinar: Paving the way for equitable AI in biology - addressing sex and gender data imbalances in research and applications
3 September 2024 | 15:00 - 16:00 CEST
The European Commision Joint Research Centre (JRC) Trustworthy AI portfolio is hosting an event with JRC researchers to share their research in the importance of data in creating equitable AI in biology.
Join the webinar on Webex
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
VIB course: Research Data Management: your ally on the way to your publication
1, 8, 22 October 2024 | Ghent, Belgium
SIB course: Introduction to machine learning with Python
3 - 4 October 2024 | Basel, Switzerland
VIB course: Docker and Apptainer (Singularity) for reproducible and automated data analysis
14 - 15 October 2024 | Leuven, Belgium
SIB course: Ensuring More Accurate, Generalisable, and Interpretable Machine Learning Models for Bioinformatics
15 October 2024 | Online
SIB course: Version Control with Git
16 - 17 October 2024 | Bern, Switzerland
SIB course: Single-Cell transcriptomics with R
29 - 31 October 2024 | Bellinzona, Switzerland
SIB course: Introduction to Containers and Snakemake for Reproducible Research
21-22 October 2024 | Bern, Switzerland
EMBL-EBI course: Single-cell RNA-seq analysis with Python
17 - 21 February 2025 | Online
ELIXIR Events and Conferences
ECCB 2024
16 - 20 September 2024 | Turku, Finland
ELIXIR Single-Cell Omics Community meeting
16 - 17 September 2024 | Helsinki, Finland
ELIXIR Data Platform F2F 2024
1 - 2 October 2024 | Padova, Italy
ELIXIR STEERS WP2 & WP3 workshop
2 - 3 October 2024 | Padova, Italy
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