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:
Bray, S.A., Lucas, X., Kumar, A. et al. J Cheminform 12, 40 (2020), https://doi.org/10.1186/s13321-020-00442-7.
The ChemicalToolbox is used within EOSC-Life’s Demonstrator 1 (Galaxy team).
Melanie Christine Föll, Lennart Moritz, Thomas Wollmann, Maren Nicole Stillger, Niklas Vockert, Martin Werner, Peter Bronsert, Karl Rohr, Björn Andreas Grüning, Oliver Schilling / GigaScience 8/12, https://doi.org/10.1093/gigascience/giz143
Jose Luis Vilas, Hemant D. Tagare, Javier Vargas, Jose Maria Carazo, Carlos Oscar S. Sorzano Nature Communications 11/1, https://doi.org/10.1038/s41467-019-13742-w
Philippe Rocca-Serra, Susanna-Assunta Sansone Scientific Data 6/1, https://doi.org/10.1038/s41597-019-0286-0
Abulikemu Abudukelimu, Matteo Barberis, Frank Redegeld, Nilgun Sahin, Raju P. Sharma, Hans V. Westerhoff Frontiers in Immunology 10, 10.3389/fimmu.2019.03091
Carole Goble, Sarah Cohen-Boulakia, Stian Soiland-Reyes, Daniel Garijo, Yolanda Gil, Michael R. Crusoe, Kristian Peters, Daniel Schober Data Intelligence 2/1-2 Yes 10.1162/dint_a_00033
Mark D. Wilkinson, Michel Dumontier, Susanna-Assunta Sansone, Luiz Olavo Bonino da Silva Santos, Mario Prieto, Dominique Batista, Peter McQuilton, Tobias Kuhn, Philippe Rocca-Serra, Mercѐ Crosas, Erik Schultes Scientific Data 6/1 10.1038/s41597-019-0184-5
Romain David, Laurence Mabile, Alison Specht, Sarah Stryeck, Mogens Thomsen, Mohamed Yahia, Clement Jonquet, Laurent Dollé, Daniel Jacob, Daniele Bailo, Elena Bravo, Sophie Gachet, Hannah Gunderman, Jean-Eudes Hollebecq, Vassilios Ioannidis, Yvan Le Bras, Emilie Lerigoleur, Anne Cambon-Thomsen Data Science Journal 19 DOI: 10.5334/dsj-2020-032
Ziaurrehman Tanoli, Umair Seemab, Andreas Scherer, Krister Wennerberg, Jing Tang, Markus Vähä-Koskela, Briefings in Bioinformatics, bbaa003, DOI: 10.1093/bib/bbaa003
Střelák, David; Filipovič, Jiří; Jiménez-Moreno, Amaya; Carazo, Jose M.; Sánchez Sorzano, Carlos Ó. 2020, Electronics 9, no. 6: 1040. DOI: 10.3390/electronics9061040
Roberto Melero; Carlos Oscar S. Sorzano; Brent Foster; José-Luis Vilas; Marta Martínez; Roberto Marabini; Erney Ramírez-Aportela; Ruben Sanchez-Garcia; David Herreros; Laura del Caño; Patricia Losana; Yunior C. Fonseca-Reyna; Pablo Conesa; Daniel Wrapp; Pablo Chacon; Jason S. McLellan; Hemant D. Tagare; Jose-Maria Carazo, IUCrJ, DOI: 10.1101/2020.07.08.191072
Caracciolo, C., Aubin, S., Jonquet, C., Amdouni, E., David, R., Garcia, L., Whitehead, B., Roussey, C., Stellato, A. and Villa, F. Data Science Journal, 2020, 19(1), p.47. DOI: 10.5334/dsj-2020-047
Daniel Jacob, Romain David, Sophie Aubin, Yves Gibon. GigaScience, Volume 9, Issue 12, December 2020, giaa144, 10.1093/gigascience/giaa144
Obst Matthias, Exter Katrina, Allcock A. Louise, Arvanitidis Christos, Axberg Alizz, Bustamante Maria, Cancio Ibon, et al. Frontiers in Marine Science, Frontiers Media, 2020, 7, 10.3389/fmars.2020.572680
J.L. Vilas, J. Oton, C. Messaoudi, R. Melero, P. Conesa, E. Ramirez-Aportela, J. Mota, M. Martinez, A. Jimenez, R. Marabini, J.M. Carazo, J. Vargas, C.O.S. Sorzano, Journal of Structural Biology: X, Volume 4, 2020, 10.1016/j.yjsbx.2019.100016
C.O.S. Sorzano, F. de Isidro-Gómez, E. Fernández-Giménez, D. Herreros, S. Marco, J.M. Carazo, C. Messaoudi, Journal of Structural Biology: X, Volume 4, 2020, 10.1016/j.yjsbx.2020.100037
Bernillon, Stéphane; Cabasson, Cecile; CASSAN, Cédric; Da Costa, Grégory; Deborde, Catherine; Flandin, Amélie; Fouillen, Laetitia; Gibon, Yves; Jacob, Daniel; Moing, Annick; Mongrand, Sebastien; Pedrot, Eric; Petriacq, Pierre; Prigent, Sylvain; Renouf, Elodie; Richard, Tristan; Rolin, Dominique; Rouger, Caroline; Valls, Josep; Van Delft, Pierre https://hal.inrae.fr/hal-02570809 10.15454/1.5572412770331912E12
Fairweather, Elliot; Wittner, Rudolf; Chapman, Martin; Holub, Petr; Curcin, Vasa http://arxiv.org/abs/2006.11233
Bray, Simon A.; Senapathi, Tharindu; Barnett, Christopher B.; Grüning, Björn A. BioRxiv 10.1101/2020.05.08.084780
Ramirez-Aportela, Erney; Maluenda, David; Fonseca, Yunior C.; Conesa, Pablo; Marabini, Roberto; Heymann, J. Bernard; Carazo, Jose Maria; Sorzano, Carlos Oscar S. BioRxiv 10.1101/2020.05.12.069831
Carole Goble 10.5281/zenodo.4012124
Canham, Steve 10.5281/zenodo.4028900
Stian Soiland-Reyes; Ignacio Eguinoa 10.5281/zenodo.4011999
Sorzano, Carlos Oscar; Crisman, Enrique; Carazo, Jose Maria; Leon, Rafael 10.26434/chemrxiv.12652997.v2
Sara Zullino, Alessandro Paglialonga, Walter Dastrù, Dario Livio Longo, Silvio Aime https://arxiv.org/abs/2103.02044
EOSC-Life encompasses 34 deliverables, all but 1 of which are public. Deliverables will be uploaded here as soon as published:
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
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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