Projects
BY-COVID Ongoing

BY-COVID is a €12 million Horizon Europe project, coordinated by ELIXIR, that strives to tackle the data challenges that can hinder effective pandemic response. The core aim of the project is to ensure that data on SARS-CoV-2 and other infectious diseases are accessible to all those who need it across research, healthcare, and industry. BY-COVID will build and expand upon the successful COVID-19…
The ELIXIR Tools Platform Ecosystem, initiated by the ELIXIR Tools Platform, is a diverse and open initiative focused on the metadata exchange across registries and repositories. Its goal is to facilitate coordination among them, enhance interoperability, reduce mismatching information, promote good practices for resources enabling community curation and contribute towards the sustainability of…
Building on the knowledge and experience gained during the piloting of the RI-PATHS approach, an ELIXIR-funded Staff Exchange project, and related work done elsewhere in ELIXIR, this project aims to increase capacity in impact evaluation across a set of national ELIXIR Nodes. With support from the ELIXIR Hub, activities will be undertaken in coordination with relevant work being done as part of…
Though the Plant Sciences Community has already implemented some critical elements of its roadmap, the project plan for this community implementation study features three key objectives, with each objective addressed in a corresponding work package: Firstly, the promotion and finalizing of plant services and tools through ELIXIR service bundles. The first work-package of the study aims at…
This implementation study will create infrastructure to chart the experimentally sampled conformational diversity of native proteins by exploiting data from the PDB, augmented with results of state-of-the-art computational tools. By integrating resources and tools, workflows will be developed to: compare and cluster different conformations adopted by homologs of the same protein and identify…
The increasingly well-documented role of intrinsic disorder in protein behavior and function requires infrastructure improvements to enable enhanced researcher access to related tools and data. A key existing infrastructure is MobiDB, which provides sequence-based predictions for the entire set of UniProtKB proteins from a number of different prediction tools. In addition, current prediction…
The aim of this new strategic implementation study (SIS) is to build on the current progress made through the ongoing implementation study, enabling the adoption and deployment of protocols and services by the broader ELIXIR community at scale. The first SIS Containers study (2019-2021) has successfully convened and established a growing ELIXIR wide consensus on high-level community-driven…
This project focuses on the enhancement of Galaxy's data management features to provide additional provenance information and improve the integration of Galaxy in the existing data management ecosystem. Existing technologies and services in ELIXIR will be supported and ongoing international projects (ELIXIR-CONVERGE, the COVID-19 Data Portal, EOSC-Life, etc.) will be complemented while building…
Following previous work by the ELIXIR Proteomics Community, PRIDE public proteomics datasets, as well as some open proteomics data analysis pipelines are starting to become available.This follow-on ELIXIR implementation study will use previous results as the base to develop a set of open and user-friendly analysis pipelines, which will be applied to  assess the possibilities for performing  more…
EOSC-Life Ongoing

The EOSC-Life project is a collaboration of 13 ESFRI Research infrastructures in the Health and Food domain to create an open collaborative digital space for life science in the European Open Science Cloud (EOSC). The project is coordinated by ELIXIR. Life science research directly addresses key societal challenges and drives the bio-economy. To keep European Life Science at the forefront of…
ELIXIR-CONVERGE is a project funded by the European Commission to help standardise life science data management across Europe. To achieve this standardisation, the project will develop a data management toolkit for life scientists. The toolkit will help ensure more research data is in the public domain, which will give scientists access to more data. This will allow them to discover new insights…
With this grant, awarded by the Research Foundation Flanders (FWO), we have the ambitious goal of building a truly integrated community of bioinformatics infrastructure. Therefore, we focus on collaboration with national (e.g. dmponline.be, VSC) and international (ELIXIR Communities, Galaxy, FAIRDOM, …) consortia and initiatives. More specifically, we will be active in the field of data…
With intrinsically disordered proteins (IDPs) and intrinsically disordered regions (IDRs) now recognised as major determinants in cellular regulation, the ELIXIR IDP community white paper presents a roadmap for e-infrastructure developments in the field of IDP research within the ELIXIR framework. The goal of these developments is to drive the creation of tools and resources to support the…
The structural Bioinformatics Community (3D-BioInfo) has the mission to better integrate protein structure-based data and tools across Europe, and to improve standardisation through better ontologies and agreed benchmarking. The ties with the structural biology research communities in Europe will be strengthened and dedicated training and outreach efforts will be taken. Four major topics form the…
Software containers are a key element in the frame of Open Science & Open Source which is strongly supported and advocated by ELIXIR. Software containers guarantee data provenance when described as part of scientific workflows and are an important element towards reproducibility. This study is divided into three work-packages that complement each other: WP1: Maintain and improve…
Many countries in Europe have nascent personalised medicine programmes indicating a shift in human genomics from a predominantly research-driven activity to one funded through healthcare. This is evidenced by the declaration of many European countries to sequence and share transnationally at least 1 million genomes by 2022. As healthcare is subject to national laws, genetic data generated in this…
Bioschemas leverages Schema.org, a widely implemented community effort supported by the main search engines to provide a way to add semantic markup to webpages. By enriching webpages with Bioschemas annotation, independently published content can be harvested and used by other resources without the need for APIs. As such, Bioschemas has the potential to boost Open and FAIR science. This study…
As data analysis is common place in life sciences, we need to establish scalable ways to develop and share analysis workflows and train researchers to make use of them. The latter entails an end-to-end approach from access to data over selection and proper usage of the appropriate workflow and deploying this on available (cloud) resources. As the ELIXIR Communities bring together domain experts…
This Strategic Implementation study around Container Orchestration aims to coordinate the ELIXIR Platforms (Compute & Tools) expertise within the Nodes, related projects and resources to establish ELIXIR-wide standards, protocols and processes for the orchestration of containerised applications provided by ELIXIR Communities. The study will be approached in  4 workpackages: WP1) Leveraging…
This Metabolomics Community-led study focusses on the standardization of fluxomics workflows. The study is led by ELIXIR Greece and ELIXIR Spain and supported by EMBL-EBI and 11 other national ELIXIR Nodes, among which ELIXIR Belgium (Bart Ghesquire). The study aims at 1) establishing standards for isotopic labelling data deposition, a major fluxomics input, and accordingly extending…
Recent progress in sequencing technologies has produced several large scale data sets for crops. The insights gained by this data have been published in high profile scientific articles, but the underlying raw genotype data and the associated sample and population metadata have not been routinely submitted to appropriate archives. The aim of this implementation study is to provide this wealth of…
This grant aims at collaboration between a number of research infrastructures in Flanders. The ESFRIs in scope are LifeWatch, DiSSCo and ICOS (Environment cluster), and ELIXIR, AnaEE, Euro-BioImaging, EMBRC and Instruct (Health and Food cluster). The project is led by VIB (ELIXIR) and VLIZ (LifeWatch).     Goal of the study is to survey the Flemish life-sciences research landscape to find…
EXCELERATE helps ELIXIR to coordinate and extend national and international data resources and ensure the delivery of world-leading life-science data services. It supports a pan-European training programme, anchored in national infrastructures, to increase bioinformatics capacity and competency. Coordinated by the ELIXIR Hub, it involves 46 partners from 17 countries. ELIXIR Belgium is involved…