leveraging the European compute infrastructures for data-intensive research guided by FAIR principles

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

EuroScienceGateway data management and contingency management plan

A data management plan (DMP) will be developed for the project, taking ethical and legal compliance measures into account, and incorporate all relevant project components from each work package. The DMP will evolve during the project and will be constantly updated. The consortium will enforce the use of open source licensed tools, packages and libraries, following the OSI recommendations. All scientific publications will be published Open Access and generated artefacts (tools, workflows), as well as services will be registered in EOSC supported registries.

Operations documentation on the Open Infrastructure deployment

Publishing of operations documentation on the Open Infrastructure deployment

Publication on the smart job scheduler implementation
Dissemination and exploitation plan

A dissemination and exploitation plan will be developed in the first months of the project and execute a communication strategy, including:●Develop and update the project website.●Blog regularly on the consortium website as well as through the channels of the consortium partners to reach out to all stakeholders.●Participate in user conferences.●Make use of well established community channels in Twitter and other social media to share relevant news, use cases and other novelties.●Fostering community building by identifying and promoting user success stories, e.g. achievements, papers that have been enabled by EuroScienceGateway.

Publication on the Pulsar Network, integrated in workflow management systems
Final summary of EuroScienceGateway main achievements, impacts, key results, sustainability data management and exploitation plans
Community onboarding cookbook published

Publication of Community onboarding cookbook

Reproducible FAIR Digital Objects for workflows

FAIR Digital Objects (FDOs), for exchanging, publishing, archiving and citing workflows and their companion data, provenance logs and associated resources, will be realized as RO-Crates.

Publication of the usage of EuroScienceGateway by multiple communities
Publishing workflow enriched FDOs to EOSC

Bring Your Own Infrastructure (compute, storage) Demonstrator

Development of the needed extensions of the EuroScienceGateway components (Pulsar and Galaxy) to automate and facilitate the integration of user provided computing and storage resources.

Publications

Building a Distributed Computing Network for Galaxy, Application to Genome Annotation

Author(s): Eva Mercier, Romane Libouban, Thomas Chaussepied, Anthony Bretaudeau.
Published in: 2024
Publisher: JOBIM 2024 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2024, Toulouse, France. 2024.

Making workflow provenance FAIR across workflow systems with Workflow Run RO-Crate

Author(s): Leo, Simone; Rodríguez-Navas, Laura; Fernández, José M.; De Geest, Paul; Pireddu, Luca; Crusoe, Michael R.; Garijo, Daniel; Colonnelli, Iacopo; Sirvent, Raül; Soiland-Reyes, Stian
Published in: 2023
Publisher: Zenodo
DOI: 10.5281/zenodo.8004793

Galaxy France: an example of a national UseGalaxy server

Author(s): Siguret, Clea, Thomas Chaussepied, Romane Libouban, Eva Mercier, Julien Seiler, Bérénice Batut, Gildas Le Corguillé, and Anthony Bretaudeau
Published in: 2024
Publisher: Galaxy Community Conference
DOI: 10.7490/F1000RESEARCH.1119767.1

Reproducible Cross-border High Performance Computing for Scientific Portals

Author(s): Kessy Abarenkov, Anne Fouilloux, Helmut Neukirchen, Abdulrahman Azab
Published in: 2022 IEEE 18th International Conference on e-Science (e-Science), 2022
Publisher: IEEE
DOI: 10.1109/ESCIENCE55777.2022.00087

Misconceptions about Galaxy debunked by the (French) Galaxy Community

Author(s): Romane Libouban, Eva Mercier, Thomas Chaussepied, Bérénice Batut, Anthony Bretaudeau, Gildas Le Corguillé
Published in: JOBIM 2024 - Journées Ouvertes Biologie Informatique Mathématiques, Jun 2024, TOULOUSE, France. pp.1-28., 2024
Publisher: HAL

Galaxy and RDM

Author(s): Sebastian Schaaf, Anika Erxleben-Eggenhofer, Bjoern Gruening
Published in: Vol. 1 (2023): 1st Conference on Research Data Infrastructure (CoRDI) - Connecting Communities, 2023
Publisher: 1st Conference on Research Data Infrastructure
DOI: 10.52825/cordi.v1i.421

Breaking myths: The reality of Galaxy’s capabilities and impact

Author(s): Gildas Le Corguillé, Anthony Bretaudeau, Björn Grüning, Wendi Bacon, Bérénice Batut
Published in: JOBIM 2025 - Journées Ouvertes en bioinformatique et de la biostatistique francophone, Jul 2025, Bordeaux, France., 2025
Publisher: HAL

Dynamic meta-scheduling in Galaxy with TPV Broker for smarter workload distribution

Author(s): Srikakulam, Sanjay Kumar; Azab, Abdulrahman; De Geest, Paul; Vondrák, Tomáš; Kuntz, Mira; Luna-Valero, Sebastian; Grüning, Björn
Published in: 2025
Publisher: Zenodo
DOI: 10.5281/ZENODO.16312226

Climate Modeling with Conda and Containers to Improve Computational Resource Usage while Achieving Native Performance and Reproducibility

Author(s): Iaquinta, Jean; Fouilloux, Anne; Ragan-Kelley, Benjamin
Published in: Crossref, 2025
Publisher: Zenodo
DOI: 10.5281/ZENODO.15600119

Practical webby FDOs With RO-Crate and FAIR Signposting

Author(s): Stian Soiland-Reyes; Peter Sefton; Simone Leo; Leyla Jael Castro; Claus Weiland; Herbert Van de Sompel
Published in: 2025
Publisher: TIB Open Publishing
DOI: 10.52825/OCP.V5I.1273

Galaxy and Scientific Communities: How to Incorporate New Ones, Uplift Engaged Ones and Maintain Mature Ones

Author(s): L. Liborio; P. Austin; A. Gonzalez-Beltran; E. Chadwick; V. Savchenko; A. Neronov; J. Iaquinta; A. Bretaudeau
Published in: PASC DAVOS, 2023
Publisher: PASC DAVOS
DOI: 10.5281/zenodo.8114821

MuonGalaxy - tools, workflows and more for muons and materials science

Author(s): Austin, Patrick; Davies, Joel; Gonzalez-Beltran, Alejandra; Liborio, Leandro
Published in: GALAXY PROJECT, 2023
Publisher: GALAXY PROJEC
DOI: 10.5281/zenodo.8116071

Making EOSC Research Objects FAIR with RO-Crate: A common metadata overlay for EOSC repositories

Author(s): Justin Clark-Casey; Stian Soiland-Reyes
Published in: EOSC, 2022
Publisher: EOSC
DOI: 10.5281/zenodo.7323480

Implementation of a reproducible pipeline for producing seasonal Arctic sea ice forecasts

Author(s): Vanessa Stöckl, Björn Grüning, Anne Fouilloux, Jean Iaquinta, Alejandro Coca-Castro
Published in: 2024
Publisher: Copernicus GmbH
DOI: 10.5194/EGUSPHERE-EGU24-8343

Genome Annotation tooling in Galaxy: contributions of the EuroScienceGateway project

Author(s): Romane Libouban, Anthony Bretaudeau
Publisher: JOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques

The Galaxy Platform and its Applications to Materials Science

Author(s): Leandro Liborio; Alejandra Gonzalez-Beltran; Patrick Austin; Eli Chadwick
Published in: STFC, 2024
Publisher: GALAXY COMMUNITY HUB
DOI: 10.5281/zenodo.8161429

Using FAIR and Open Science practices to better understand vegetation browning in Troms and Finnmark (Norway)

Author(s): Jean Iaquinta, Anne Fouilloux
Published in: EGU General Assembly 2023, 2023
Publisher: EGU General Assembly 2023
DOI: 10.5194/EGUSPHERE-EGU23-2579

Enhancing RDM in Galaxy by integrating RO-Crate

Author(s): Paul De Geest; Frederik Coppens; Stian Soiland-Reyes; Ignacio Eguinoa; Simone Leo
Published in: Research Ideas and Outcomes, 2022
Publisher: Research Ideas and Outcomes
DOI: 10.3897/rio.8.e95164

Making EOSC Research Objects FAIR with RO-Crate: A common metadata overlay for EOSC repositories

Author(s): Clark-Casey, Justin; Soiland-Reyes, Stian
Published in: EOSC Symposium 2022 , Prague, CZ, 2022-11-14/--17 (Session FAIR enabling practices, Part A), 2022
Publisher: Zenodo
DOI: 10.5281/zenodo.7323301

Connecting Galaxy to a compute cluster

Author(s): Nate Coraor, Björn Grüning, Helena Rasche
Published in: 2025
Publisher: Galaxy Training Materials

BioHackEU22 Report: Enhancing Research Data Management in Galaxy and Data Stewardship Wizard by utilising RO-Crates

Author(s): Ignacio Eguinoa, Marek Suchánek, Vojtěch Knaisl, Jan Slifka, Paul De Geest, David López, Björn Grüning, Simone Leo, Stian Soiland-Reyes
Published in: BioHackrXiv, 2023
Publisher: BioHackrXiv
DOI: 10.37044/OSF.IO/24JST

Optimized meta-scheduling in Galaxy using TPV Broker

Author(s): Azab, Abdulrahman; De Geest, Paul; Srikakulam, Sanjay Kumar; Vondra, Tomáš; Kuntz, Mira; Grüning, Björn
Published in: 2025
Publisher: Zenodo
DOI: 10.5281/ZENODO.14936846

A Docker-based interactive Jupyterlab powered by GPU for artificial intelligence in Galaxy

Author(s): Anup Kumar
Published in: 2025
Publisher: Galaxy Training Materials

Genome annotation with Braker3

Author(s): Romane LIBOUBAN, Anthony Bretaudeau
Published in: 2025
Publisher: Galaxy Training Materials

F1000 Research

Author(s): Anthony Bretaudeau, Helena Rasche
Published in: 2023, ISSN 2046-1402
Publisher: F1000 Research Ltd.
DOI: 10.7490/F1000RESEARCH.1119590.1

EuroScienceGateway D2.2: Publishing workflow enriched FDOs to EOSC

Author(s): Soiland-Reyes, Stian; Chadwick, Eli; Dadras, Armin; Grüning, Björn; Condurache, Catalin; Luna-Valero, Sebastian; Savchenko, Volodymyr
Published in: 2025
Publisher: Zenodo
DOI: 10.5281/zenodo.15094824

RO-Crate in Python

Author(s): Simone Leo, Bruno P. Kinoshita
Published in: 2023
Publisher: Galaxy Training Materials

Optimized meta-scheduling in Galaxy using TPV Broker

Author(s): Azab, Abdulrahman; De Geest, Paul; Srikakulam, Sanjay Kumar; Vondra, Tomáš; Kuntz, Mira; Grüning, Björn
Published in: 2025
Publisher: Zenodo
DOI: 10.5281/ZENODO.14936846

Setting up Celery Workers for Galaxy

Author(s): Mira Kuntz
Published in: 2023
Publisher: Galaxy Training Materials

The Galaxy platform: Applications to catalysis workflows

Author(s): Liborio L, Devadasan S, Austin P and Nieva de la Hidalga A.
Published in: 2024, ISSN 2046-1402
Publisher: F1000Research LTd
DOI: 10.7490/F1000RESEARCH.1119782.1

Setting up a dev Onedata instance

Author(s): Łukasz Opioła
Published in: 2025
Publisher: Galaxy Training Materials

Galaxy Sustainability Report

Author(s): Jain, Smitesh
Published in: 2025
Publisher: Zenodo
DOI: 10.5281/ZENODO.16030328

Galaxy Interactive Tools

Author(s): Nate Coraor, Simon Gladman, Helena Rasche, Anthony Bretaudeau, José Manuel Domínguez
Published in: 2020
Publisher: Galaxy Training Materials

EuroScienceGateway: WP2 introduction

Author(s): Soiland-Reyes, Stian; Goble, Carole
Published in: 2022
Publisher: Zenodo
DOI: 10.5281/zenodo.7152762

Sharing data as machine-actionable objects using RO-Crate, Bioschemas and Signposting

Author(s): Stian Soiland-Reyes; Simone Leo; Leyla Jael Castro; Peter Sefton; Carole Goble
Published in: 2023
Publisher: Zenodo
DOI: 10.5281/ZENODO.7989657

Computing Simulations for Large Scale Experiments: the Case of Muons

Author(s): Liborio, Leandro; Austin, Patrick; Beltran, Alejandra Gonzalez; Davies, Joel
Published in: 2023
Publisher: Zenodo
DOI: 10.5281/zenodo.8161368

Introduction to deep learning

Author(s): Anup Kumar, Alireza Khanteymoori
Published in: 2025
Publisher: Galaxy Training Materials

Community onboarding cookbook published

Author(s): Nikolay, Vazov
Published in: 2024
Publisher: Zenodo
DOI: 10.5281/ZENODO.15826940

Onedata user-owned storage

Author(s): Łukasz Opioła, Bartosz Walkowicz
Published in: 2025
Publisher: Galaxy Training Materials

Comparison of two annotation tools - Helixer and Braker3

Author(s): Romane LIBOUBAN
Published in: 2025
Publisher: Galaxy Training Materials

Functional annotation of protein sequences

Author(s): Anthony Bretaudeau
Published in: 2022
Publisher: Galaxy Training Materials

Creating lightweight FAIR Digital Objects with RO-Crate and FAIR Signposting

Author(s): Soiland-Reyes, Stian; Sefton, Peter; Castro, Leyla Jael; Coppens, Frederik; Garijo, Daniel; Leo, Simone; Portier, Marc; Groth, Paul; Goble, Carole
Published in: 2022
Publisher: Zenodo
DOI: 10.5281/ZENODO.7245315

Genome annotation with Helixer

Author(s): Romane LIBOUBAN, Anthony Bretaudeau
Published in: 2025
Publisher: Galaxy Training Materials

Exporting to Onedata remote

Author(s): Łukasz Opioła, Bartosz Walkowicz
Published in: 2025
Publisher: Galaxy Training Materials

Publication on the smart job scheduler implementation

Author(s): Azab, Abdulrahman; Srikakulam, Sanjay Kumar; De Geest, Paul; Vondrák, Tomáš; Grüning, Björn; Kuntz, Mira; Fernandez-del-Castillo, Enol; Luna-Valero, Sebastian
Published in: 2025
Publisher: Zenodo
DOI: 10.5281/ZENODO.15827107

Improving Galaxy provenance export using RO-Crate

Author(s): De Geest, Paul; Coppens, Frederik; Eguinoa, Ignacio; Soiland-Reyes, Stian; Leo, Simone
Published in: 2022
Publisher: Zenodo
DOI: 10.5281/ZENODO.7257145

Automating Galaxy workflows using the command line

Author(s): Simon Bray, Wolfgang Maier
Published in: 2025
Publisher: Galaxy Training Materials

EuroScienceGateway D2.1: Reproducible FAIR Digital Objects for Workflows

Author(s): Soiland-Reyes, Stian; Chadwick, Eli; Bacall, Finn; Fernández, José M.; Grüning, Björn; Bayındır, Hakan
Published in: 2024
Publisher: Zenodo
DOI: 10.5281/ZENODO.13225792

Analyse Argo data

Author(s): Marie Josse
Published in: 2025
Publisher: Galaxy Training Materials

Single-cell ATAC-seq standard processing with SnapATAC2

Author(s): Timon Schlegel
Published in: 2025
Publisher: Galaxy Training Materials

Configuring the Onedata connectors (remotes, Object Store, BYOS, BYOD)

Author(s): Łukasz Opioła, Bartosz Walkowicz
Published in: 2025
Publisher: Galaxy Training Materials

Make your tools available on your subdomain

Author(s): Marie Josse
Published in: 2024
Publisher: Galaxy Training Materials

From NDVI data with OpenEO to time series visualisation with Holoviews

Author(s): Marie Josse
Published in: 2024
Publisher: Galaxy Training Materials

Use Apptainer containers for running Galaxy jobs

Author(s): Torfinn Nome, Marius van den Beek, Matthias Bernt, Helena Rasche, Mira Kuntz
Published in: 2025
Publisher: Galaxy Training Materials

Importing (uploading) data from Onedata

Author(s): Łukasz Opioła, Bartosz Walkowicz
Published in: 2025
Publisher: Galaxy Training Materials

Galaxy Installation with Ansible

Author(s): Helena Rasche, Nate Coraor, Simon Gladman
Published in: 2019
Publisher: Galaxy Training Materials

Create a subdomain for your community on UseGalaxy.eu

Author(s): Marie Josse
Published in: 2024
Publisher: Galaxy Training Materials

Bring Your Own Infrastructure

Author(s): Pedersen, Maiken; Srikakulam, Sanjay Kumar; De Geest, Paul; Fernandez-del-Castillo, Enol; Cristofori, Andrea; Luna-Valero, Sebastian; Tangaro, Marco Antonio; Nicotri, Stefano
Published in: 2024
Publisher: Zenodo
DOI: 10.5281/ZENODO.15729502

Customizing the look of Galaxy

Author(s): Laila Los
Published in: 2023
Publisher: Galaxy Training Materials

Marine Omics identifying biosynthetic gene clusters

Author(s): Marie Josse
Published in: 2024
Publisher: Galaxy Training Materials

Galaxy and Scientific Communities: How to Incorporate New Ones, Uplift Engaged Ones and Maintain Mature Ones

Author(s): Liborio, L.; P. Austin; A. Gonzalez-Beltran; E. Chadwick; V. Savchenko; A. Neronov; J. Iaquinta; A. Bretaudeau
Published in: Conference: PASC2023 , Davos, Switzerland, 26-27 June 2023, 2023
Publisher: Zenodo
DOI: 10.5281/zenodo.8114821

Masking repeats with RepeatMasker

Author(s): Anthony Bretaudeau, Alexandre Cormier, Laura Leroi, Erwan Corre, Stéphanie Robin, Jonathan Kreplak
Published in: 2021
Publisher: Galaxy Training Materials

WorkflowHub: FAIR Workflow Registry

Author(s): Justin Clark-Casey, Carole Goble, Finn Bacall, Frederik Coppens, & WorkflowHub Club
Published in: 2022
Publisher: Zenodo
DOI: 10.5281/ZENODO.7323470

Exporting Workflow Run RO-Crates from Galaxy

Author(s): Paul De Geest
Published in: 2023
Publisher: Galaxy Training Materials

Best practices for workflows in GitHub repositories

Author(s): Simone Leo, Eli Chadwick
Published in: 2023
Publisher: Galaxy Training Materials

Interactive Tools (IT) in Galaxy

Author(s): Kayikcioglu, Tunc; Srikakulam, Sanjay Kumar; Maier, Wolfgang; Grüning, Björn
Published in: 2023
Publisher: Zenodo
DOI: 10.5281/ZENODO.8335099

Running Jobs on Remote Resources with Pulsar

Author(s): Nate Coraor, Simon Gladman, Marius van den Beek, Helena Rasche, Gianmauro Cuccuru, Mira Kuntz
Published in: 2025
Publisher: Galaxy Training Materials

Getting your hands-on earth data

Author(s): Marie Josse
Published in: 2024, Page(s) GALAXY TRAINING
Publisher: Galaxy Training Materials

Enabling an operational, open and FAIR EOSC ecosystem

Author(s): Sebastian Schaaf,Anika Erxleben-Eggenhofer, Björn Grüning, The EuroScienceGateway Project
Published in: 2023
Publisher: ELIXIR
DOI: 10.7490/F1000RESEARCH.1119627.1

RO-Crate - Introduction

Author(s): Stian Soiland-Reyes, Peter Sefton
Published in: 2023
Publisher: Galaxy Training Materials

Refining Genome Annotations with Apollo (eukaryotes)

Author(s): Anthony Bretaudeau
Published in: 2025
Publisher: Galaxy Training Materials

The Galaxy Platform and its Applications to Materials Science

Author(s): Liborio, Leandro; Gonzalez-Beltran, Alejandra; Austin, Patrick; Chadwick, Eli
Published in: 2023
Publisher: Zenodo
DOI: 10.5281/zenodo.8161429

EuroScienceGateway Data Management Plan (DMP; D1.1)

Author(s): Erxleben, Anika; Schaaf, Sebastian; D'Anna, Flora; Gruening, Bjoern; Coppens, Frederik
Published in: 2023
Publisher: Zenodo
DOI: 10.5281/ZENODO.10054550

EuroscienceGateway Dissemination & Exploitation plan (D&E; D1.2)

Author(s): Erxleben, Anika; Schaaf, Sebastian; Marchis, Oana; Gruening, Bjoern
Published in: 2023
Publisher: Zenodo
DOI: 10.5281/zenodo.10055554

Making Earth System Modelling and Observation Workflows Reproducible and Portable Across Federated High-Performance Computer and Cloud Platforms with Conda-based Containers

Author(s): Iaquinta, Jean; Fouilloux, Anne
Published in: 2025
Publisher: Zenodo
DOI: 10.5281/ZENODO.15600666

Galaxy Database schema

Author(s): Hans-Rudolf Hotz, Björn Grüning
Published in: 2016
Publisher: Galaxy Training Materials

Finding the muon stopping site with pymuon-suite in Galaxy

Author(s): Leandro Liborio, Eli Chadwick, Patrick Austin
Published in: 2024
Publisher: Galaxy Training Materials

Refining Genome Annotations with Apollo (prokaryotes)

Author(s): Anthony Bretaudeau, Helena Rasche, Nathan Dunn, Mateo Boudet
Published in: 2021
Publisher: Galaxy Training Materials

Getting started with Onedata distributed storage

Author(s): Łukasz Opioła, Bartosz Walkowicz
Published in: 2025
Publisher: Galaxy Training Materials

Creating high resolution images of Galaxy Workflows

Author(s): Laila Los
Published in: 2024
Publisher: Galaxy Training Materials

Ocean Data View (ODV)

Author(s): Marie Josse
Published in: 2023
Publisher: Galaxy Training Materials

EuroScienceGateway MS3: Initial EuroScienceGateway workflows registered

Author(s): Soiland-Reyes, Stian; Grüning, Björn; De Geest, Paul
Published in: 2024
Publisher: Zenodo
DOI: 10.5281/ZENODO.10728922

EuroScienceGateway D2.1: Reproducible FAIR Digital Objects for Workflows

Author(s): Soiland-Reyes, Stian; Chadwick, Eli; Bacall, Finn; Fernández, José M.; Grüning, Björn; Bayındır, Hakan
Published in: Soiland-Reyes , S , Chadwick , E , Bacall , F , Fernández , J M , Grüning , B & Bayındır , H 2024 , EuroScienceGateway D2.1: Reproducible FAIR Digital Objects for Workflows . Zenodo . https://doi.org/10.5281/zenodo.13225792, 2024
Publisher: Zenodo
DOI: 10.5281/ZENODO.13225792

Genome Annotation

Author(s): Anika Erxleben, Björn Grüning
Published in: 2015
Publisher: Galaxy Training Materials

Ocean's variables study

Author(s): Marie Josse
Published in: 2025
Publisher: Galaxy Training Materials

Sentinel 5P data visualisation

Author(s): Marie Josse
Published in: 2024
Publisher: Galaxy Training Materials

WorkflowHub Knowledge Graph

Author(s): Hambley, A., Chadwick, E., Woolland, O., Soiland-Reyes, S., & Savchenko, V.
Published in: 2024
Publisher: Zenodo
DOI: 10.5281/ZENODO.13362051

Genome annotation with Funannotate

Author(s): Anthony Bretaudeau
Published in: 2023
Publisher: Galaxy Training Materials

D3.1 Operations documentation on the Open Infrastructure deployment

Author(s): Nicotri, Stefano; Tangaro, Marco Antonio; Zambelli, Federico; Ruda, Miroslav; Krenek, Ales; Grüning, Björn; Srikakulam, Sanjay Kumar; Bretaudeau, Anthony; Batalden, Sondre; Chavero Díez, María; De Geest, Paul
Published in: 2024
Publisher: Zenodo
DOI: 10.5281/ZENODO.15920451

Obis marine indicators

Author(s): Marie Josse, Yvan Le Bras
Published in: 2023
Publisher: Galaxy Training Materials

Conda, Container and Bots

Author(s): Zierep, Paul; Srikakulam, Sanjay Kumar; Schaaf, Sebastian; Grüning, Björn
Published in: Proceedings of the Conference on Research Data Infrastructure, 2023, ISSN 2941-296X
Publisher: TIB Open Publishing (Technische Informationsbibliothek (TIB)) on behalf of Nationale Forschungsdateninfrastruktur (NFDI) e.V.
DOI: 10.52825/CORDI.V1I.417

Fostering and sustaining collaborative innovation: Insights from ELIXIR Europe's life science Communities

Author(s): Clare Garrard, Katharina F Heil, Maria Cristina Aspromonte, Bérénice Batut, Magda Chegkazi, John M Hancock, Elaine Harrison, Naveed Ishaque, Giselle Kerry, Eija Korpelainen, Jerry Lanfear, Corinne Martin, Sebastian Schaaf, Serena Scollen, Yun-Yun Tseng, Sameer Velankar, Juan Antonio Vizcaíno, Robert M Waterhouse, Egon Willighagen, Niklas Blomberg, Peter Maccallum
Published in: F1000Research, Issue 14, 2025, ISSN 2046-1402
Publisher: F1000 Research Ltd
DOI: 10.12688/F1000RESEARCH.168288.1

Dynamic configuration and data security for bioinformatics cloud services with the Laniakea Dashboard

Author(s): Marco Antonio Tangaro; Marica Antonacci; Giacinto Donvito; Nadina Foggetti; Pietro Mandreoli; Daniele Colombo; Graziano Pesole; Federico Zambelli
Published in: NAR Genomics and Bioinformatics, Issue 4, 2024, ISSN 2631-9268
Publisher: Oxford University Press
DOI: 10.1093/NARGAB/LQAE140

RO-Crate: packaging metadata love notes into FAIR Digital Objects

Author(s): Carole Goble, Stian Soiland-Reyes
Published in: Helmholtz Metadata Collaboration | Conference 2022, 2022
Publisher: HMC
DOI: 10.5281/zenodo.7147703

WorkflowHub: a registry for computational workflows

Author(s): Ove Johan Ragnar Gustafsson; Sean R. Wilkinson; Finn Bacall; Stian Soiland-Reyes; Simone Leo; Luca Pireddu; Stuart Owen; Nick Juty; José M. Fernández; Tom Brown; Hervé Ménager; Björn Grüning; Salvador Capella-Gutierrez; Frederik Coppens; Carole Goble
Published in: Scientific Data, Issue 12, 2025, ISSN 2052-4463
Publisher: Nature
DOI: 10.1038/S41597-025-04786-3

Facilitating Reproducibility in Catalysis Research with Managed Workflows and RO‐Crates: A Galaxy Case Study

Author(s): Abraham Nieva‐de‐la‐Hidalga, Leandro Liborio, Patrick Austin, Subindev Devadasan, Tom Underwood, Alexander Belozerov, Martin Wilding, Nitya Ramanan, C. Richard A. Catlow
Published in: ChemCatChem, Issue 17, 2025, ISSN 1867-3880
Publisher: Wiley
DOI: 10.1002/CCTC.202401676

Updating Linked Data practices for FAIR Digital Object principles

Author(s): Stian Soiland-Reyes, Leyla Jael Castro, Daniel Garijo, Marc Portier, Carole Goble, Paul Groth
Published in: Research Ideas and Outcomes, Issue 8, 2022, ISSN 2367-7163
Publisher: RIO journal
DOI: 10.3897/RIO.8.E94501

Using text-mining to measure the scientific impact and legacy of ELIXIR, a distributed research infrastructure for life science data

Author(s): Francesca De Leo, Erika Balsyte, Robert Petryszak, Marilena D’Ambrosio, Chiara Bruno, Martin Cook, Ivan Mičetić, Corinne S. Martin
Published in: F1000Research, Issue 13, 2025, ISSN 2046-1402
Publisher: F1000 Research Ltd
DOI: 10.12688/F1000RESEARCH.158264.3

Finding workflows in the Galaxy universe: integrating a global ecosystem using workflow registries

Author(s): Gustafsson, Ove Johan Ragnar; Soranzo, Nicola; Gruening, Bjoern; van den Beek, Marius; Bacall, Finn; Goble, Carole; Zaib Khan, Farah; Price, Gareth; Ward, Nigel; Christiansen, Jeff
Published in: GALAXY AUSTRALIA, 2023
Publisher: GALAXY AUSTRALIA
DOI: 10.5281/zenodo.8157531

An accessible infrastructure for artificial intelligence using a Docker-based JupyterLab in Galaxy

Author(s): Anup Kumar, Gianmauro Cuccuru, Björn Grüning, Rolf Backofen
Published in: Gigascience, 2023, ISSN 2047-217X
Publisher: Oxford University Press
DOI: 10.1093/gigascience/giad028

Der europäische Galaxy-Server demokratisiert die Analyse biowissenschaftlicher Daten

Author(s): Erxleben-Eggenhofer, Anika
Published in: Laborjournal, 2023, ISSN 1612-8354
Publisher: LJ-Verlag Herfort und Sailer
DOI: 10.3030/101057388

Evaluating FAIR Digital Object and Linked Data as distributed object systems

Author(s): Stian Soiland-Reyes; Carole Goble; Paul Groth
Published in: PeerJ Computer Science, 2024, ISSN 2376-5992
Publisher: PeerJ Inc.
DOI: 10.48550/arxiv.2306.07436

Hydrogen Radical Chemistry at High-Symmetry {2Fe2S} Centers Probed Using a Muonium Surrogate

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Publisher: Nature
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Publisher: Oxford University Press (OUP)
DOI: 10.1093/BIOINFORMATICS/BTAE282

Electronic structure calculations for muon spectroscopy<sup>*</sup>

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Publisher: IOP Publishing
DOI: 10.1088/2516-1075/ADCB7C

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Published in: Nucleic Acids Research, 2024, ISSN 1362-4962
Publisher: Oxford University Press
DOI: 10.1093/NAR/GKAE410

Recording provenance of workflow runs with RO-Crate

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Published in: PLOS ONE, Issue 19, 2024, ISSN 1932-6203
Publisher: Public Library of Science (PLoS)
DOI: 10.1371/JOURNAL.PONE.0309210

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Published in: Communications in Computer and Information Science, Nordic e-Infrastructure Tomorrow, 2025
Publisher: Springer Nature Switzerland
DOI: 10.1007/978-3-031-86240-3_4

Integration of Nordugrid ARC with Galaxy and EGI IM

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Published in: Communications in Computer and Information Science, Nordic e-Infrastructure Tomorrow, 2025
Publisher: Springer Nature Switzerland
DOI: 10.1007/978-3-031-86240-3_5

An Ecosystem of Services for FAIR Computational Workflows

Author(s): Wilkinson; Gustafsson; Bacall; Belhajjame; Capella; Fernandez Gonzalez; Fosso Tande; Gadelha; Garijo; Grubel; Grüning; Khan; Kanwal; Leo; Owen; Pireddu; Pouchard; Rodríguez-Navas; Serrano-Solano; Soiland-Reyes; Vilne; Williams; Wouters; Coppens; Goble
Published in: Arxiv, Computer Science, Distributed, Parallel, and Cluster Computing, 2025, ISSN 2331-8422
Publisher: ArXiv
DOI: 10.48550/ARXIV.2505.15988

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