Risultati finali
First version of the OpenRiskNet APIs will be released to all partners of the consortium and associated partners for feedback and usage.
Report on deployment of virtual infrastructures with service discovery and container orchestrationKey components of OpenRiskNet e-infrastructure, including the live virtual instance for testing and the service discovery, will be online and documented in the report.
Fully functional support infrastructureSupport infrastructure will be fully functional and in operation.
Reference OpenRiskNet system available onlineThe reference OpenRiskNet instance will be fully operable and accessible to demonstrate the functionalities to new users. Additionally, all components will be available in containerized form for easy deployment.
Final API available for internal and external service providersFinal OpenRiskNet APIs will be released.
Development infrastructure onlineComputational infrastructure for the development and testing of the virtual environments, APIs and data and software integration will be completely set up.
Final report on the dissemination and training activities will be filed.
First report on the management processFirst report summarizing the management process will be filed.
Report of the Service Integration with OpenRiskNet (Final Report)This report will describe the status of the service integration including numbers of active services provided by the consortium, associated partners and other third parties.
Report on requirement analysis and recommendations for WP2-4 including Data Management PlanThe report will describe the results obtained from the interviews and interactions with associated partners and projects as part of the requirement analysis.
Final report on the management processFinal report summarizing the management process will be filed.
Report of the Service Integration with OpenRiskNet (Intermediate Report)This report will describe the status of the service integration including numbers of active services provided by the consortium, associated partners and other third parties.
Data management, maintenance and sustainability planFinal data management plan as well as maintenance and sustainability plan will be filed.
Report of the Service Integration with OpenRiskNet (Initial Deployment)This report will describe the status of the service integration including active services provided by the consortium, associated partners and other third parties.
First documentation of the core e-infrastructureFirst documentation of the core e-infrastructure with examples of prototype implementations will be delivered. This documentation will be updated throughout the project.
Report on Re-Identification Risks and Private by Design Risk ManagementThe report will cover possible risk with respect to security, privacy and re-identification of personal data as well as present the private by design risk management concept.
Report on the results of the Implementation ChallengeThis report will summarize the selected data sources and software tools identified by the implementation challenge to be supported by OpenRiskNet partners and the status of their implementation.
Dissemination & Training Activities (Intermediate Report)Intermediate report on the dissemination and training activities will be filed.
Initial version of the data management plan will been delivered.
Interoperability of data and software tools will be established and applied to the case studies.
Associated partner program is establishedRules for the associated partner program will be defined, formalized, legally approved and accepted by the consortium.
Final definition of case studiesCase studies for testing the usability of the infrastructure in state-of-the-art research will be defined.
Finalization of case studies and analysis of remaining weaknessesAll case studies will have been finalized and remaining challenges will be identified. Measures to solve these challenges, especially with respect to the regulatory usage of the workflows developed in the case studies will be outlined.
Pubblicazioni
Autori:
Exner, Thomas; Dokler, Joh; Bachler, Daniel; Farcal, Lucian; Evelo, Chris; Willighagen, Egon; Jacobs, Marc; Doganis, Philip; Sarimveis, Haralambos; Lynch, Iseult; Kramer, Stefan; Notredame, Cedric; Jennen, Danyel; Gkoutos, Georgios; Spjuth, Ola; Jennings, Paul; Dudgeon, Tim; Bois, Frederic; Hardy, Barry
Pubblicato in:
SOT 2018 (Society of Toxicology 57th Annual Meeting and ToxExpo), Numero 1, 2018
Editore:
Society of Toxicology
DOI:
10.5281/zenodo.1199286
Autori:
Exner, Thomas
Pubblicato in:
OpenTox USA, 2017
Editore:
OpenTox
DOI:
10.5281/zenodo.831444
Autori:
Thomas Exner
Pubblicato in:
OpenTox Euro 2017, 2017
Editore:
OpenTox
Autori:
Tim Dudgeon
Pubblicato in:
Nextflow workshop, 2017
Editore:
Centre for Genomic Regulation
Autori:
Thomas Exner
Pubblicato in:
OpenTox Euro 2017, 2017
Editore:
OpenTox
Autori:
Chris Evelo
Pubblicato in:
OpenTox Euro 2017, 2017
Editore:
OpenTox
Autori:
Iseult Lynch
Pubblicato in:
OpenTox Euro 2017, 2017
Editore:
OpenTox
Autori:
Marvin Martens, Chris Evelo, Egon Willighagen
Pubblicato in:
ByteMAL (Bioinformatics for Young inTernational researchers Expo: Maastricht-Aachen-Liège), 2017
Editore:
ByteMAL
Autori:
Marvin Martens
Pubblicato in:
OpenTox Euro 2017, 2017
Editore:
OpenTox
Autori:
Ola Spjuth
Pubblicato in:
COST-CHARME 'Big Data Training School for Life Sciences', 2017
Editore:
COST-CHARME
Autori:
Ola Spjuth
Pubblicato in:
2nd international de.NBI symposium, 2017
Editore:
German Network for Bioinformatics Infrastructure
Autori:
Philip Doganis, Georgia Tsiliki, Charalampos Chomenidis, Angelos Valsamis, George Drakakis, Evangelia Anagnostopoulou, Haralambos Sarimveis
Pubblicato in:
Open Science Fair 2017, 2017
Editore:
Open Science Fair
Autori:
Imane Boudellioua, Rozaimi B. Mahamad Razali, Maxat Kulmanov, Yasmeen Hashish, Vladimir B. Bajic, Eva Goncalves-Serra, Nadia Schoenmakers, Georgios V. Gkoutos, Paul N. Schofield, Robert Hoehndorf
Pubblicato in:
PLOS Computational Biology, Numero 13/4, 2017, Pagina/e e1005500, ISSN 1553-7358
Editore:
PLOS
DOI:
10.1371/journal.pcbi.1005500
Autori:
Maris Lapins, Staffan Arvidsson, Samuel Lampa, Arvid Berg, Wesley Schaal, Jonathan Alvarsson, Ola Spjuth
Pubblicato in:
Journal of Cheminformatics, Numero 10/1, 2018, ISSN 1758-2946
Editore:
Chemistry Central
DOI:
10.1186/s13321-018-0271-1
Autori:
T.E. Exner, J. Dokler, D. Bachler, L.R. Farcal, C.T. Evelo, E. Willighagen, D.G.J. Jennen, M. Jabocs, P. Doganis, H. Sarimveis, I. Lynch, G. Gkoutos, S. Kramer, C. Notredame, O. Spjuth, P. Jennings, T. Dudgeon, F. Bois, B. Hardy
Pubblicato in:
Toxicology Letters, Numero 295, 2018, Pagina/e S104, ISSN 0378-4274
Editore:
Elsevier BV
DOI:
10.1016/j.toxlet.2018.06.617
Autori:
J.R. Bayjanov, J.C. Kleinjans, D.G.J. Jennen
Pubblicato in:
Toxicology Letters, Numero 295, 2018, Pagina/e S100-S101, ISSN 0378-4274
Editore:
Elsevier BV
DOI:
10.1016/j.toxlet.2018.06.608
Autori:
M. Martens, E. Willighagen, P. Nymark, R. Grafström, L.D. Burgoon, H.T. Aladjov, F. Torres Andón, C.T. Evelo
Pubblicato in:
Toxicology Letters, Numero 295, 2018, Pagina/e S227-S228, ISSN 0378-4274
Editore:
Elsevier BV
DOI:
10.1016/j.toxlet.2018.06.962
Autori:
Samuel Lampa, Jonathan Alvarsson, Staffan Arvidsson Mc Shane, Arvid Berg, Ernst Ahlberg, Ola Spjuth
Pubblicato in:
Frontiers in Pharmacology, Numero 9, 2018, ISSN 1663-9812
Editore:
Frontiers Media S.A.
DOI:
10.3389/fphar.2018.01256
Autori:
Imane Boudellioua, Maxat Kulmanov, Paul N. Schofield, Georgios V. Gkoutos, Robert Hoehndorf
Pubblicato in:
Scientific Reports, Numero 8/1, 2018, ISSN 2045-2322
Editore:
Nature Publishing Group
DOI:
10.1038/s41598-018-32876-3
Autori:
Boudellioua, Imane; Kulmanov, Maxat; Schofield, Paul N.; Gkoutos, Georgios V.; Hoehndorf, Robert
Pubblicato in:
BMC Bioinformatics, Vol 20, Iss 1, Pp 1-8 (2019), Numero 4, 2019, ISSN 1471-2105
Editore:
BioMed Central
DOI:
10.17863/CAM.36763
Autori:
Dudgeon, Tim; Spjuth, Ola; Bois, Frederic; Bachler, Daniel
Pubblicato in:
Numero 1, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1479138
Autori:
Jennings, Paul; Exner, Thomas; Farcal, Lucian; Oki, Noffisat; Sarimveis, Harry; Doganis, Philip; Jennen, Danyel; Geerke, Daan; Willighagen, Egon; Bois, Frederic; Rautenberg, Micha; Dudgeon, Tim; Hardy, Barry
Pubblicato in:
Numero 1, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1479127
Autori:
Spjuth, Ola; Dudgeon, Tim; Bachler, Daniel; Gebele, Denis; Rautenberg, Micha; Alvarsson, Jonathan; Karatzas, Pantelis; Willighagen, Egon; Evelo, Chris; Martens, Marvin; Exner, Thomas
Pubblicato in:
Numero 1, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1479475
Autori:
Doganis, Philip; Karatzas, Pantelis; Sarimveis, Harry; Dudgeon, Tim; Spjuth, Ola; Farcal, Lucian; Exner, Thomas; Lynch, Iseult; Hardy, Barry
Pubblicato in:
Numero 2, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1479648
Autori:
Rautenberg, Micha; Karwath, Andreas; Kramer, Stefan; Dudgeon, Tim; Spjuth, Ola; Bachler, Daniel; Exner, Thomas; Dokler, Joh; Sarimveis, Haralambos; Valsamis, Angelos; Doganis, Philip; Willighagen, Egon; Bois, Frederic
Pubblicato in:
Numero 3, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1479444
Autori:
Bachler, Daniel; Dokler, Joh; Dudgeon, Tim; Willighagen, Egon; Karatzas, Pantelis; Lynch, Iseult; Hardy, Barry; Exner, Thomas
Pubblicato in:
Numero 2, 2019
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.2597061
Autori:
Spjuth, Ola; Farcal, Lucian; Lynch, Iseult; Dudgeon, Tim; Exner, Thomas
Pubblicato in:
Numero 2, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.2558121
Autori:
Danyel, Jennen; Bayjanov, Jumamurat; Farcal, Lucian; Oki, Noffisat; Geerke, Daan; Doganis, Philip; Martens, Marvin; Willighagen, Egon; Gebele, Denis; Jacobs, Marc; Dudgeon, Tim; Lynch, Iseult; Exner, Thomas
Pubblicato in:
Numero 5, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.2596998
Autori:
Dudgeon, Tim; Christie, Alan; Bachler, Daniel; Farcal, Lucian; Sarimveis, Harry; Doganis, Philip; Karatzas, Pantelis; Spjuth, Ola; Lynch, Iseult; Hardy, Barry
Pubblicato in:
Numero 1, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1483397
Autori:
Floden, Evan; Lloret-Villas, Audald; Di Tommaso, Paolo; Spjuth, Ola; Farcal, Lucian; Dudgeon, Tim; Jennen, Danyel
Pubblicato in:
Numero 2, 2019
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.3256306
Autori:
Farcal, Lucian; Florean, Oana; Doganis, Philip; Jennen, Danyel; Willighagen, Egon; Martens, Marvin; Bachler, Daniel; Oki, Noffisat; Exner, Thomas
Pubblicato in:
Numero 1, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.2558116
Autori:
Farcal, Lucian; Lynch, Iseult; Exner, Thomas
Pubblicato in:
Numero 5, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.2557741
Autori:
Jennen, Danyel; Dudgeon, Tim; Sarimveis, Haralambos; Doganis, Philip; Karatzas, Pantelis; Rautenberg, Micha; Willighagen, Egon; Exner, Thomas
Pubblicato in:
Numero 2, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1484309
Autori:
Farcal , Lucian; Exner, Thomas; Hardy, Barry
Pubblicato in:
Numero 5, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1484358
Autori:
Farcal, Lucian; Exner, Thomas
Pubblicato in:
Numero 5, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.1484319
Autori:
Farcal, Lucian; Bachler, Daniel; Dokler, Joh; Exner, Thomas
Pubblicato in:
Numero 4, 2018
Editore:
OpenRiskNet
DOI:
10.5281/zenodo.2557731
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