Resultado final
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.
Publicaciones
Autores:
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
Publicado en:
SOT 2018 (Society of Toxicology 57th Annual Meeting and ToxExpo), Edición 1, 2018
Editor:
Society of Toxicology
DOI:
10.5281/zenodo.1199286
Autores:
Exner, Thomas
Publicado en:
OpenTox USA, 2017
Editor:
OpenTox
DOI:
10.5281/zenodo.831444
Autores:
Thomas Exner
Publicado en:
OpenTox Euro 2017, 2017
Editor:
OpenTox
Autores:
Tim Dudgeon
Publicado en:
Nextflow workshop, 2017
Editor:
Centre for Genomic Regulation
Autores:
Thomas Exner
Publicado en:
OpenTox Euro 2017, 2017
Editor:
OpenTox
Autores:
Chris Evelo
Publicado en:
OpenTox Euro 2017, 2017
Editor:
OpenTox
Autores:
Iseult Lynch
Publicado en:
OpenTox Euro 2017, 2017
Editor:
OpenTox
Autores:
Marvin Martens, Chris Evelo, Egon Willighagen
Publicado en:
ByteMAL (Bioinformatics for Young inTernational researchers Expo: Maastricht-Aachen-Liège), 2017
Editor:
ByteMAL
Autores:
Marvin Martens
Publicado en:
OpenTox Euro 2017, 2017
Editor:
OpenTox
Autores:
Ola Spjuth
Publicado en:
COST-CHARME 'Big Data Training School for Life Sciences', 2017
Editor:
COST-CHARME
Autores:
Ola Spjuth
Publicado en:
2nd international de.NBI symposium, 2017
Editor:
German Network for Bioinformatics Infrastructure
Autores:
Philip Doganis, Georgia Tsiliki, Charalampos Chomenidis, Angelos Valsamis, George Drakakis, Evangelia Anagnostopoulou, Haralambos Sarimveis
Publicado en:
Open Science Fair 2017, 2017
Editor:
Open Science Fair
Autores:
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
Publicado en:
PLOS Computational Biology, Edición 13/4, 2017, Página(s) e1005500, ISSN 1553-7358
Editor:
PLOS
DOI:
10.1371/journal.pcbi.1005500
Autores:
Maris Lapins, Staffan Arvidsson, Samuel Lampa, Arvid Berg, Wesley Schaal, Jonathan Alvarsson, Ola Spjuth
Publicado en:
Journal of Cheminformatics, Edición 10/1, 2018, ISSN 1758-2946
Editor:
Chemistry Central
DOI:
10.1186/s13321-018-0271-1
Autores:
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
Publicado en:
Toxicology Letters, Edición 295, 2018, Página(s) S104, ISSN 0378-4274
Editor:
Elsevier BV
DOI:
10.1016/j.toxlet.2018.06.617
Autores:
J.R. Bayjanov, J.C. Kleinjans, D.G.J. Jennen
Publicado en:
Toxicology Letters, Edición 295, 2018, Página(s) S100-S101, ISSN 0378-4274
Editor:
Elsevier BV
DOI:
10.1016/j.toxlet.2018.06.608
Autores:
M. Martens, E. Willighagen, P. Nymark, R. Grafström, L.D. Burgoon, H.T. Aladjov, F. Torres Andón, C.T. Evelo
Publicado en:
Toxicology Letters, Edición 295, 2018, Página(s) S227-S228, ISSN 0378-4274
Editor:
Elsevier BV
DOI:
10.1016/j.toxlet.2018.06.962
Autores:
Samuel Lampa, Jonathan Alvarsson, Staffan Arvidsson Mc Shane, Arvid Berg, Ernst Ahlberg, Ola Spjuth
Publicado en:
Frontiers in Pharmacology, Edición 9, 2018, ISSN 1663-9812
Editor:
Frontiers Media S.A.
DOI:
10.3389/fphar.2018.01256
Autores:
Imane Boudellioua, Maxat Kulmanov, Paul N. Schofield, Georgios V. Gkoutos, Robert Hoehndorf
Publicado en:
Scientific Reports, Edición 8/1, 2018, ISSN 2045-2322
Editor:
Nature Publishing Group
DOI:
10.1038/s41598-018-32876-3
Autores:
Boudellioua, Imane; Kulmanov, Maxat; Schofield, Paul N.; Gkoutos, Georgios V.; Hoehndorf, Robert
Publicado en:
BMC Bioinformatics, Vol 20, Iss 1, Pp 1-8 (2019), Edición 4, 2019, ISSN 1471-2105
Editor:
BioMed Central
DOI:
10.17863/CAM.36763
Autores:
Dudgeon, Tim; Spjuth, Ola; Bois, Frederic; Bachler, Daniel
Publicado en:
Edición 1, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1479138
Autores:
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
Publicado en:
Edición 1, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1479127
Autores:
Spjuth, Ola; Dudgeon, Tim; Bachler, Daniel; Gebele, Denis; Rautenberg, Micha; Alvarsson, Jonathan; Karatzas, Pantelis; Willighagen, Egon; Evelo, Chris; Martens, Marvin; Exner, Thomas
Publicado en:
Edición 1, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1479475
Autores:
Doganis, Philip; Karatzas, Pantelis; Sarimveis, Harry; Dudgeon, Tim; Spjuth, Ola; Farcal, Lucian; Exner, Thomas; Lynch, Iseult; Hardy, Barry
Publicado en:
Edición 2, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1479648
Autores:
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
Publicado en:
Edición 3, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1479444
Autores:
Bachler, Daniel; Dokler, Joh; Dudgeon, Tim; Willighagen, Egon; Karatzas, Pantelis; Lynch, Iseult; Hardy, Barry; Exner, Thomas
Publicado en:
Edición 2, 2019
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.2597061
Autores:
Spjuth, Ola; Farcal, Lucian; Lynch, Iseult; Dudgeon, Tim; Exner, Thomas
Publicado en:
Edición 2, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.2558121
Autores:
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
Publicado en:
Edición 5, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.2596998
Autores:
Dudgeon, Tim; Christie, Alan; Bachler, Daniel; Farcal, Lucian; Sarimveis, Harry; Doganis, Philip; Karatzas, Pantelis; Spjuth, Ola; Lynch, Iseult; Hardy, Barry
Publicado en:
Edición 1, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1483397
Autores:
Floden, Evan; Lloret-Villas, Audald; Di Tommaso, Paolo; Spjuth, Ola; Farcal, Lucian; Dudgeon, Tim; Jennen, Danyel
Publicado en:
Edición 2, 2019
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.3256306
Autores:
Farcal, Lucian; Florean, Oana; Doganis, Philip; Jennen, Danyel; Willighagen, Egon; Martens, Marvin; Bachler, Daniel; Oki, Noffisat; Exner, Thomas
Publicado en:
Edición 1, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.2558116
Autores:
Farcal, Lucian; Lynch, Iseult; Exner, Thomas
Publicado en:
Edición 5, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.2557741
Autores:
Jennen, Danyel; Dudgeon, Tim; Sarimveis, Haralambos; Doganis, Philip; Karatzas, Pantelis; Rautenberg, Micha; Willighagen, Egon; Exner, Thomas
Publicado en:
Edición 2, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1484309
Autores:
Farcal , Lucian; Exner, Thomas; Hardy, Barry
Publicado en:
Edición 5, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1484358
Autores:
Farcal, Lucian; Exner, Thomas
Publicado en:
Edición 5, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.1484319
Autores:
Farcal, Lucian; Bachler, Daniel; Dokler, Joh; Exner, Thomas
Publicado en:
Edición 4, 2018
Editor:
OpenRiskNet
DOI:
10.5281/zenodo.2557731
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