This position statement highlights expectations of the clusters and the concerned research communities, pointing out a common structured vision and a series of suggestions for the future. Then it contains a more detailed analysis from each cluster.
At EOSC-Life, our goal is to enable researchers to pool research data on the cloud in order to collaborate across disciplines and generate new findings in life sciences. View publications featuring research output shared through EOSC-Life here.
The following scientific publications are at least partially funded via EOSC-Life, Grant Agreement No. 824087:
The following non-peer-reviewed publications are at least partially funded via EOSC-Life, Grant Agreement No. 824087:
EOSC-Life encompasses 34 deliverables, all but 1 of which are public. Deliverables will be uploaded here as soon as published:
David, R, Burton, N, Davidson, S C, McEachern, S, Kang, K, Michalewicz, A, Pillai, P, Spreadborough, K, & Stevens, F. (2021). RDA 18 Meeting. Zenodo. 10.5281/zenodo.5663084
This poster, supported by some EOSC-Life members, is presented in tandem with the Sensitive Data IG session at RDA18 (which shares the same name). In previous meetings, the Sensitive Data IG has scoped the interest and needs of the RDA community. At this meeting, we focus on specific challenges and opportunities associated with working with Sensitive Data. This poster explores one of these – how do we understand sensitive data definitions in different regions and disciplines, and how might we develop a shared language around sensitive data. For example, developing an understanding of different community agreed vocabularies and how these relate to each other. This poster aims to promote wider discussion on how sensitive data is currently defined. Further, it aims to draw out how context can impact whether data is considered sensitive. In doing so, it takes steps towards developing a common language for discussing sensitive data classifications and levels across contexts/disciplines/localities.
David, Romain, Ohmann, Christian, Boiten, Jan-Willem, Canham, Steve, Panagiotopoulou, Maria, Mayrhofer, Michaela Theresia, Longo, Dario, Bietrix, Florence, Chiusano, Maria Luisa, Laroquette, Arnaud, Richard, Audrey, Cano Abadía, Mónica, Dastru, Walter, & Verde, Pablo Emilio. (2021). EOSC-Life pilot study on the intercalibration of a categorisation system for FAIRer digital objects related to sensitive data in the life sciences. RDA 18 Meeting. Zenodo. https://doi.org/10.5281/zenodo.5729437
Wittner, Rudolf; Holub, Petr; Geiger, Jörg; Müller, Heimo; Goble, Carole; Soiland-Reyes, Stian; Fairweather, Elliot; Pirredu, Luca; Frexia, Francesca; Mascia, Cecilia; Zanetti, Gianluigi; Nakae, Hiroki; Strambio, Caterina; Moore, Josh; Grunwald, David; Swedlow, Jason 4th Provenance Week 2020 10.5281/zenodo.3901011
EOSC-Life version here.
David, Romain, Richard, Audrey, Stepanyann, Diana, Versteeg, Krista, Mineau-Cesari, Jonathan, Mistou, Michel-Yves, … Raoul, Hervé. (2020). Issues and obstacles to the sharing of sensitive data in Europe, who are the stakeholders and what are their responsibilities ? (Version 1.0). Presented at the CODATA and GO FAIR International FAIR Convergence Symposium (FAIR Convergence Symposium), France, 10.5281/zenodo.4293611
Presented at:
• RDA’s 16th Plenary – remotely, “Knowledge Ecology”, (RDA P16), Costa Rica, 09 – 12 November 2020 (Session Poster)
• CODATA and GO FAIR International FAIR Convergence Symposium (FAIR Convergence Symposium), France, 27 November – 4 December 2020 (Session Poster, Poster 63)
Allegra Via. Presentation given during the second edition of the webinar “Covid-19 e condivisione dei dati: perché in Italia si fa troppo poco?” belonging to the event series “Open Science e Covid-19. Collaborare per contrastare la pandemia”, on November 16th, 2020.
Frederik Coppens. Presentation on the status and progress in Belgium at the monthly meeting on the COVID-19 Data Portal organised by EMBL-EBI and the European Commission. This represents the status in November 2020, focussing on the development of tools to submit data to ENA. A command-line application was developed which was made available in Galaxy. Additionally containers have been generated to easily run the application locally.
Maddalena Fratelli. Presentation at the conference “Towards replacement of animals for scientific purposes” , 2-3 February 2021. Talking about machine learning to develop models of drug sensitivity prediction, (Q)SAR models of toxicity prediction and the role of data re-use in enhancing external validity of the studies.
Romain David, Laurent Bouveret, Lorraine Coché, Pedro Pizzigatti Corrêa, Rorie Edmunds, Ana Heredia, … Lesley Wyborn. (2021). Data dictionary cookbook for research data and software interoperability at global scale (Version 1.0). Presented at the Research Data Alliance Plenary 17 (RDA P17), Edinburg http://doi.org/10.5281/zenodo.4683066
David, Romain, Akmon, Dharma, Burton, Nichola, McEachern, Steven, Michalewicz, Aleksandra, Pillai, Priyanka, … Stevens, Frankie. (2021). RDA Sensitive Data Interest Group: Goals and Roadmap. http://doi.org/10.5281/zenodo.4690571
Irene Sánchez, Laura del Caño, Carlos Oscar Sorzano: FAIRness in Cryo-Electron Microscopy data analysis. FAIR Metrics and data quality session at the EOSC Symposium 2021 (https://www.eoscsecretariat.eu/eosc-symposium-2021). This session pointed out a method developed within the EOSC-Life project for helping Cryo-EM facility users the deposition of data and processing workflows in a standardized way in order to increase its re-use by the scientific community.
David, Romain, Specht, Alison, O’Brien, Margaret, Wyborn, Lesley, Drummond, Christina, Edmunds, Rorie, Filippone, Claudia, Machicao, Jeaneth, Miyairi, Nobuko, Parton, Graham, Pignatari Drucker, Debora, Stall, Shelley & Zimmer, Niklas. (2022). RDA 19th Plenary Meeting, Part Of International Data Week, 20–23 June 2022, Seoul, South Korea. This poster offers an overview of the many multi-language challenges for effective Data Stewardship.
Machicao, Jeaneth, Abbes, Ali Ben, Meneguzzi, Leonardo, Corrêa, Pedro Pizzigatti, Specht, Alison, David, Romain, Subsol, Gérard, Vellenich, Danton Ferreira, Stall, Shelley, Mouquet, Nicolas, Chaumont, Marc, Berti-Equille, Laure, & Mouillot, David. (2022). RDA 19th Plenary Meeting, Part Of International Data Week, Seoul, South Korea. Based on the reproduction of three Deep Learning case studies on real-world tasks, such as poverty estimation from remote sensing imagery, we identified common problems in the reproduction, then proposed a set of recommendations (‘fixes’) to overcome these problems.
Abbes, Ali Ben, Machicao, Jeaneth, Meneguzzi, Leonardo, Corrêa, Pedro Pizzigatti, Specht, Alison, David, Romain, Subsol, Gérard, Vellenich, Danton Ferreira, Stall, Shelley, Mouquet, Nicolas, Chaumont, Marc, Berti-Equille, Laure, & Mouillot, David. (2022). Checklist Strategies to Improve the Reproducibility of Deep Learning Experiments with an Illustration. RDA 19th Plenary Meeting, Part Of International Data Week, Seoul, South Korea. We compiled 3 different aspects to help researchers to improve Reproducibility and Replicability (R&R), referring to machine learning checklists, guidelines, and principles from FAIR. Then, we illustrated the compilation of 3 recent DL experiments for socio-economic estimation using remotely sensed data.
Epinoux, Clémence, Castrec, Justine, David, Romain, Fontaine, Quentin, Fullgrabe, Lovina, Gobert, Sylvie, Le Floch, Stephane, Le Jeune, Pierre, Madon, Bénédicte, Marengo, Michel, Pignon-Mussaud, Cécilia, Pillet, Marion, & Thomas, Helen. RDA 19th Plenary Meeting, Part Of International Data Week, Seoul, South Korea. In this poster, we show how the QUAMPO project sought to be part of the open science and FAIR principles (Findable, Accessible, Interoperable and Reusable) movement. Thus, QUAMPO is aiming to become a pioneer project in opening multidisciplinary data in ecotoxicological monitoring of biomarkers in Corsican ports.
Romano, P., Rosato, P., EOSC-Life project Consortium. 18th Annual Meeting of the Bioinformatics Italian Society, BITS 2022, Verona, Italy. EOSC-LIFE has been funded by the EU in the context of initiatives for the empowerment of Research Infrastructures (RIs). It brings together the 13 Life Science RIs to create an open, digital and collaborative space for biological and medical research. It aims at enabling interoperability of the RI data and workflows, in line with the FAIR principles, by leveraging appropriate technologies such as APIs, ontologies and workflow management systems. In this poster, we present some of its most recent achievements.
In December 2021, EOSC-Life was asked to submit a project brief to the European Commission highlighting milestones toward integration with the European Open Science Cloud and including recommendations for future priorities within the EOSC.
Read the project brief
The EOSC Science Cluster projects sent a joint letter to the EOSC Association and the European Commission in September 2021 arguing for the continuation of the Science Cluster activities in the HEU Work Programme for Research Infrastructures 2023-2024.
View here
This position statement highlights expectations of the clusters and the concerned research communities, pointing out a common structured vision and a series of suggestions for the future. Then it contains a more detailed analysis from each cluster.
Through its cluster projects, ESCAPE, ENVRI-FAIR, SSHOC, PaNOSC and EOSC-Life, the European Strategy Forum on Research Infrastructures (ESFRI) steers the integration and consolidation of thematic e-infrastructure platforms in preparation for connecting them to EOSC. The need to leverage domain expertise and better drive the innovation which research communities require can be found in these position papers reflecting current views and expectations about EOSC and the contributions of ESFRI to the European data infrastructure. An executive summary and overview table provide insights into the views of some of the most important research infrastructures in Europe on the future EOSC.
You can read the collection of the five position papers on Zenodo at this link: https://zenodo.org/record/3675081
The European Open Science Cloud (EOSC) will “enable a trusted, virtual, federated environment in Europe to store, share and reuse digital outputs from research (including publications, data, metadata and software) across borders and scientific disciplines”1. Today, at the end of 2020, many building blocks are in place and on-going EOSC projects endeavour to enrich the EOSC ecosystem. To ensure strong engagement by research communities, we believe that this is the time to re-orient the EOSC activities towards higher relevance for these communities.
The Science Clusters ENVRI-FAIR , EOSC-LIFE , ESCAPE , PaNOSC , SSHOC bring together 72 world-class research infrastructures from the ESFRI roadmap and beyond to work on FAIR data management and connecting their user communities to the EOSC. The European e-infrastructures EGI , EUDAT , GÉANT , and OpenAIRE provide inclusive services across Europe and beyond to the benefit of science.
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