ELIXIR-UK Coordination Office
Lead Research Organisation:
Earlham Institute
Department Name: Research Faculty
Abstract
The ELIXIR-UK Coordination Office, based at the Earlham Institute in Norwich, will provide national coordination for the activities of the UK Node of ELIXIR. ELIXIR is a European project to integrate life sciences data across the continent with the aim of facilitating the linking of data worldwide. Each country involved in ELIXIR has its own Node, the UK's Node being ELIXIR-UK. ELIXIR-UK coordinates a wide range of activities across training in bioinformatics, data integration, and provision of tools and data involving 16 UK Universities and Research Institutes and the Coordination Office will be pivotal in their delivery, cross-connectivity and impact.
Technical Summary
The ELIXIR-UK Coordination Office will provide strategic and administrative leadership and support to the UK ELIXIR Node. ELIXIR-UK coordinates a wide range of activities across training in bioinformatics, data integration, and provision of tools and data involving 16 UK Universities and Research Institutes and expects to expand its activities further over time.
Planned Impact
Strong participation in ELIXIR is essential to maintain the long-term reputation and international impact of UK bioinformatics and data infrastructure, and to its credibility and equal standing. The ELIXIR-UK node acts as a single entity to partner with other nodes and the hub to jointly develop and run a cohesive EU digital data infrastructure; to roll out the UK's best and to roll in the ELIXIR's member states' best to the benefit of the UK. This will increase the impact of UK bioinformatics globally by giving it influence in decision-making processes during the development of this infrastructure. By engaging sub-communities within the bioinformatics research community, the Office will have a direct positive impact on the UK research community by bringing these communities together and facilitating the building of new collaborations.
The Coordination Office will support ELIXIR in strengthening links across the national life sciences data infrastructure, working together with the UK community and funders, and allowing it to actively facilitate the transfer of technology, data and expertise between different disciplines, from Europe and beyond. These activities will benefit the UK research community who need to make use of large-scale life sciences data (from genomics to environmental scale data) and UK business involved in making use of such data from the health sciences to agricultural companies. It will do this by providing easier access to the essential data and tools needed for them to carry out their research and development.
Training in quantitative science is a priority for all three research councils and by integrating UK and international efforts in this area ELIXIR-UK plays a strategically important role. The BBSRC/MRC review of vulnerable skills identified statistics and quantitative skills as key needs for maintaining the UK's leading position in science with its consequent impact on economic growth. ELIXIR-UK's training activity focusses on five key areas: structural bioinformatics, clinical genomics, applied genomics (relevant to crop plants and farmed animals), core bioinformatics skills (such as statistics, software development, data curation and standards) and metabolomics; strengthening the UK training landscape to provide a deeper pool of skilled individuals in this critical area.
The Coordination Office will support ELIXIR in strengthening links across the national life sciences data infrastructure, working together with the UK community and funders, and allowing it to actively facilitate the transfer of technology, data and expertise between different disciplines, from Europe and beyond. These activities will benefit the UK research community who need to make use of large-scale life sciences data (from genomics to environmental scale data) and UK business involved in making use of such data from the health sciences to agricultural companies. It will do this by providing easier access to the essential data and tools needed for them to carry out their research and development.
Training in quantitative science is a priority for all three research councils and by integrating UK and international efforts in this area ELIXIR-UK plays a strategically important role. The BBSRC/MRC review of vulnerable skills identified statistics and quantitative skills as key needs for maintaining the UK's leading position in science with its consequent impact on economic growth. ELIXIR-UK's training activity focusses on five key areas: structural bioinformatics, clinical genomics, applied genomics (relevant to crop plants and farmed animals), core bioinformatics skills (such as statistics, software development, data curation and standards) and metabolomics; strengthening the UK training landscape to provide a deeper pool of skilled individuals in this critical area.
Organisations
- Earlham Institute, United Kingdom (Lead Research Organisation)
- Natural Environment Research Council, Swindon (Co-funder)
- Medical Research Council (Co-funder)
- ELIXIR (Collaboration)
- Pennsylvania State University, United States (Collaboration)
- Albert Ludwig University of Freiburg (Collaboration)
- Curie Institute Paris (Institut Curie) (Collaboration)
- Cleveland Clinic (Collaboration)
- Johns Hopkins University, United States (Collaboration)
- Oregon Health and Science University, United States (Collaboration)
People |
ORCID iD |
| Neil Hall (Principal Investigator) |
Publications
Alterovitz G
(2018)
Enabling precision medicine via standard communication of HTS provenance, analysis, and results.
in PLoS biology
Eckes A
(2017)
Introducing the Brassica Information Portal: Towards integrating genotypic and phenotypic Brassica crop data
in F1000Research
Hancock J
(2016)
An open and transparent process to select ELIXIR Node Services as implemented by ELIXIR-UK
in F1000Research
Larcombe L
(2017)
ELIXIR-UK role in bioinformatics training at the national level and across ELIXIR.
in F1000Research
| Description | We have set up the collaboration agreement between to coordination office and the UK Hub. Also a consortium agreement between all UK partners. We have established a number of ELIXIR-UK resources and roadmap resources that contribute to, and benefit from ELIXIR infrastructure. We have held multiple meetings of the community to inform future strategy |
| Exploitation Route | This is a community coordination grant so it is by nature enabling |
| Sectors | Agriculture, Food and Drink,Digital/Communication/Information Technologies (including Software),Education,Environment,Manufacturing, including Industrial Biotechology,Pharmaceuticals and Medical Biotechnology |
| URL | http://www.elixiruknode.org/ |
| Description | The Elixir Coordination office coordinates activities of 15 different member organisations accross the UK delivering the UK contribution to the transeuropean ELXIR project. Many of ELIXIR-UK members are involved (often in a leadership role) in national, European and international organisations where they work on behalf of ELIXIR in some way. ELIXIR-UK delivers training to UK and international science in FAIR data management, software and data carpentry and in the use of bioinformatics tools and resources. ELIXIR-UK coordinates the response of the data infrastructure community to government requests for information including the UKRI infrastructure roadmap and the Science and technology Committee inquiry into balance and effectiveness of science funding |
| First Year Of Impact | 2018 |
| Sector | Agriculture, Food and Drink,Environment,Pharmaceuticals and Medical Biotechnology |
| Impact Types | Cultural,Societal,Economic,Policy & public services |
| Description | BBSRC ENWW panel membership |
| Geographic Reach | National |
| Policy Influence Type | Membership of a guideline committee |
| Impact | The panel advises BBSRC exec and councillor how best to deliver BBSRC strategy. Impact is difficult to quantify |
| Description | BEIS e-Infrastructure Advisory Board (2018) Carole Goble |
| Geographic Reach | Europe |
| Policy Influence Type | Participation in a advisory committee |
| Description | FAIR in practice - Jisc report on the Findable Accessible Interoperable and Reuseable Data Principles |
| Geographic Reach | National |
| Policy Influence Type | Membership of a guideline committee |
| URL | https://zenodo.org/record/1245568#.XIf-tLjgp3i |
| Description | G7 Open Science Working Group |
| Geographic Reach | Multiple continents/international |
| Policy Influence Type | Membership of a guideline committee |
| Impact | developing G7 policy on open science |
| Description | Oral Evidence to House of Commons Science and Technology Committee enquiry on Balance and effectiveness of research and innovation spending |
| Geographic Reach | National |
| Policy Influence Type | Gave evidence to a government review |
| URL | https://parliamentlive.tv/Event/Index/4bdf3ff7-d1a6-4605-8b73-aca355bf9f89 |
| Description | Providing responses to two UK RI surveys asking for information on the UK landscape of research infrastructures. |
| Geographic Reach | National |
| Policy Influence Type | Participation in a national consultation |
| URL | https://www.ukri.org/files/infrastructure/landscape-analysis-2-pdf |
| Description | Representative for the UK on G7 Open Science Working Group |
| Geographic Reach | Europe |
| Policy Influence Type | Participation in a national consultation |
| Description | The Open Research Data Task Force "Realising the potential of open research data" |
| Geographic Reach | National |
| Policy Influence Type | Membership of a guideline committee |
| URL | https://www.universitiesuk.ac.uk/policy-and-analysis/research-policy/open-science/Pages/open-researc... |
| Description | UK Commons Science and Technology Select Committee on research and innovation: inquiry on balance and effectiveness of research and innovation in the context of ELIXIR-UK |
| Geographic Reach | National |
| Policy Influence Type | Participation in a national consultation |
| URL | https://www.parliament.uk/business/committees/committees-a-z/commons-select/science-and-technology-c... |
| Description | UKRI Research and Innovation Infrastructure Roadmap |
| Geographic Reach | National |
| Policy Influence Type | Participation in a national consultation |
| URL | https://www.ukri.org/research/infrastructure/ |
| Description | submission to UKRI infrastructure review |
| Geographic Reach | National |
| Policy Influence Type | Participation in a national consultation |
| URL | https://www.ukri.org/files/infrastructure/progress-report-summary-document-final-march-2019-pdf/ |
| Description | ELIXIR-CONVERGE |
| Amount | € 5,000,000 (EUR) |
| Funding ID | 871075 |
| Organisation | European Commission H2020 |
| Sector | Public |
| Country | Belgium |
| Start | 02/2020 |
| End | 01/2023 |
| Description | EOSC Enhance: Enhancing the EOSC portal and connecting thematic clouds |
| Amount | € 1,999,700 (EUR) |
| Funding ID | 871160 |
| Organisation | European Commission H2020 |
| Sector | Public |
| Country | Belgium |
| Start | 12/2019 |
| End | 11/2021 |
| Description | EOSC-Life, Providing an open collaborative space for digital biology in Europe |
| Amount | € 23,745,996 (EUR) |
| Funding ID | INFRAEOSC-04-2018, H2020-EU.1.4.1.1, 824087 |
| Organisation | European Commission H2020 |
| Sector | Public |
| Country | Belgium |
| Start | 03/2019 |
| End | 02/2023 |
| Description | H2020-INFRADEV-2016-2 EOSCpilot The European Open Science Cloud for Research Pilot, |
| Amount | € 10,000,000 (EUR) |
| Funding ID | 739563 |
| Organisation | European Commission H2020 |
| Sector | Public |
| Country | Belgium |
| Start | 01/2017 |
| End | 04/2019 |
| Description | IMI FAIRplus |
| Amount | € 4,000,000 (EUR) |
| Funding ID | IMI |
| Organisation | European Commission H2020 |
| Sector | Public |
| Country | Belgium |
| Start | 01/2019 |
| End | 12/2022 |
| Description | SYNTHESYS PLUS Synthesis of systematic resources |
| Amount | € 11,325,200 (EUR) |
| Funding ID | INFRAIA-01-2018-2019, H2020-EU.1.4.1.2, 823827 |
| Organisation | European Commission H2020 |
| Sector | Public |
| Country | Belgium |
| Start | 02/2019 |
| End | 01/2023 |
| Title | Common Workflow Language |
| Description | The Common Workflow Language (CWL) is a specification for describing analysis workflows and tools in a way that makes them portable and scalable across a variety of software and hardware environments, from workstations to cluster, cloud, and high performance computing (HPC) environments. CWL is designed to meet the needs of data-intensive science, such as Bioinformatics, Medical Imaging, Astronomy, Physics, and Chemistry. CWL is developed by a multi-vendor working group consisting of organizations and individuals aiming to enable scientists to share data analysis workflows. The CWL project is maintained on Github and follows the Open-Stand.org principles for collaborative open standards development. Legally CWL is a member project of Software Freedom Conservancy and is formally managed by the elected CWL leadership team, however every-day project decisions are made by the CWL community which is open for participation by anyone. We are founding members of CWL; co-developed the specification, develop tools such as the CWL Viewer (View.commonwl.org) and promote the adoption of CWL internationally particularly through our EU projects in the Life Sciences. CWL is based on work we undertook in the Taverna Workflow system, developed in the OMII project and developed since in EU projects. |
| Type Of Material | Improvements to research infrastructure |
| Year Produced | 2016 |
| Provided To Others? | Yes |
| Impact | Its the Common Workflow Language adopted extensively by the commerical and and open source sector across disciplines, and in particuar adopted by the Life Sciences. Will be the basis of the European Open Science Cloud Life Science Collaboratory (EOSCLife) and several other ESFRIs. |
| URL | http://commonwl.org |
| Description | ELIXIR |
| Organisation | ELIXIR |
| Country | United Kingdom |
| Sector | Charity/Non Profit |
| PI Contribution | The collaboration between ELIXIR-UK and ELIXIR is facilitated by the ELIXIR-UK Coordination Office (CO) which operates at the Earlham Institute. The CO provides logistical, administrative, communications, and scientific support to the activities carried out by ELIXIR-UK, and the two staff of the office are the only people within ELIXIR-UK whose budget is directly supported through a designated grant for ELIXIR-UK. By connecting the many parties involved in delivering ELIXIR-UK within the UK and further afield, the team at the EI provides core support for all these activities. |
| Collaborator Contribution | ELIXIR-UK member organisations are estimated to contribute around 6,000,000 GBP each year in-kind to developing and maintaining the ELIXIR-UK Node Resources, and in supporting a range or ELIXIR-specific activities (taking part in face-to-face board meetings, committee meetings, etc.). ELIXIR-UK is contractually obligated (through the Node Collaboration Agreement between ELIXIR Hub and ELIXIR-UK) to ensure the delivery of these services as components of the distributed European life science information infrastructure that is ELIXIR. As result of engagement with ELIXIR, ELIXIR-UK member organisations have received around 500,00 GBP in funding for small projects (commissioned services) funded by the ELIXIR Hub. |
| Impact | 1. Collaborative responses to enquiries about life science information infrastructure from UK government bodies 2. Participation in face-to-face meetings for coordinating, and developing, life science information infrastructure 3. Contributing directly to the development of life science information infrastructure (CWL development) 4. Communication instruments (Twitter, mailing lists) for communicating with ELIXIR-UK members 5. Closer cooperation and collaboration of ELIXIR-UK Node Resources with each other, and with ELIXIR Node Resources delivered by other nodes 6. Organisation of yearly ELIXIR-UK All Hands meetings |
| Start Year | 2016 |
| Description | ELIXIR |
| Organisation | ELIXIR |
| Country | United Kingdom |
| Sector | Charity/Non Profit |
| PI Contribution | ELIXIR UK is the National Node for the ELIXIR Europe Research Infrastructure. In new work we are developjng a workflow colaboratory for European Life Sciences in the EOSC Life Cluster project. This is based on myExperiment (developed with the myGrid platform), the Common workflow Language and based on the FAIRDOM-SEEK platform developed by the DMMCore project. |
| Collaborator Contribution | An extensive cooperation across Europe for Research Data in Life Sciences, an intergovernmental infrastructure of 21 nation states represented by National Nodes. ELIXIR-UK co-leads TWO of the five Platforms - Interoperability and Training. We chair the Training Coordinators Group, run the Training portal and pioneered train the trainer and carpentry workshops across the National Nodes. In interoperability we lead the Bioschemas.org metadata markup initiative across the nodes, identifier services workflow interoperability. The Node participates in numerous cross-node cooperations and has won funds for 5 Implementation studies channelling funds to its members. |
| Impact | An extensive cooperation across Europe for Research Data in Life Sciences, an intergovernmental infrastructure of 21 nation states represented by National Nodes. ELIXIR-UK co-leads TWO of the five Platforms - Interoperability and Training. We chair the Training Coordinators Group, run the Training portal and pioneered train the trainer and carpentry workshops across the National Nodes. In interoperability we established the Bioschemas.org metadata markup initiative across the nodes, identifier services workflow interoperability. The Node participates in numerous cross-node cooperations and has won funds for 5 Implementation studies channelling funds to its members. Through this partnership Node members are beneficiaries in EU H2020 INFRA projects: CORBEL, EXCELERATE, EOSCpilot |
| Start Year | 2013 |
| Description | Galaxy Project |
| Organisation | Albert Ludwig University of Freiburg |
| Country | Germany |
| Sector | Academic/University |
| PI Contribution | Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research. The Galaxy Committers team, established in 2015 as an extension of the original Galaxy Team, leads the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. Dr. N. Soranzo is a member of the Galaxy Committers since it was formed. |
| Collaborator Contribution | All members of the Galaxy Committers team contribute to the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. |
| Impact | Multiple Galaxy releases: 15.07, 15.10, 16.01, 16.04, 16.10, 17.01, 17.05, 17.09, 18.01, 18.05, 18.09 and 19.01 . Ongoing support of users and deployers of Galaxy servers across various channels, like mailing lists, chat systems, issue trackers. Production and update of freely training materials, hosted at https://training.galaxyproject.org/ This collaboration is multi-disciplinary in scope, involving biology, bioinformatics and medicine. |
| Start Year | 2015 |
| Description | Galaxy Project |
| Organisation | Cleveland Clinic |
| Department | Lerner Research Institute |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research. The Galaxy Committers team, established in 2015 as an extension of the original Galaxy Team, leads the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. Dr. N. Soranzo is a member of the Galaxy Committers since it was formed. |
| Collaborator Contribution | All members of the Galaxy Committers team contribute to the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. |
| Impact | Multiple Galaxy releases: 15.07, 15.10, 16.01, 16.04, 16.10, 17.01, 17.05, 17.09, 18.01, 18.05, 18.09 and 19.01 . Ongoing support of users and deployers of Galaxy servers across various channels, like mailing lists, chat systems, issue trackers. Production and update of freely training materials, hosted at https://training.galaxyproject.org/ This collaboration is multi-disciplinary in scope, involving biology, bioinformatics and medicine. |
| Start Year | 2015 |
| Description | Galaxy Project |
| Organisation | Curie Institute Paris (Institut Curie) |
| Country | France |
| Sector | Academic/University |
| PI Contribution | Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research. The Galaxy Committers team, established in 2015 as an extension of the original Galaxy Team, leads the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. Dr. N. Soranzo is a member of the Galaxy Committers since it was formed. |
| Collaborator Contribution | All members of the Galaxy Committers team contribute to the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. |
| Impact | Multiple Galaxy releases: 15.07, 15.10, 16.01, 16.04, 16.10, 17.01, 17.05, 17.09, 18.01, 18.05, 18.09 and 19.01 . Ongoing support of users and deployers of Galaxy servers across various channels, like mailing lists, chat systems, issue trackers. Production and update of freely training materials, hosted at https://training.galaxyproject.org/ This collaboration is multi-disciplinary in scope, involving biology, bioinformatics and medicine. |
| Start Year | 2015 |
| Description | Galaxy Project |
| Organisation | Johns Hopkins University |
| Department | Department of Biology |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research. The Galaxy Committers team, established in 2015 as an extension of the original Galaxy Team, leads the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. Dr. N. Soranzo is a member of the Galaxy Committers since it was formed. |
| Collaborator Contribution | All members of the Galaxy Committers team contribute to the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. |
| Impact | Multiple Galaxy releases: 15.07, 15.10, 16.01, 16.04, 16.10, 17.01, 17.05, 17.09, 18.01, 18.05, 18.09 and 19.01 . Ongoing support of users and deployers of Galaxy servers across various channels, like mailing lists, chat systems, issue trackers. Production and update of freely training materials, hosted at https://training.galaxyproject.org/ This collaboration is multi-disciplinary in scope, involving biology, bioinformatics and medicine. |
| Start Year | 2015 |
| Description | Galaxy Project |
| Organisation | Oregon Health and Science University |
| Department | School of Medicine |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research. The Galaxy Committers team, established in 2015 as an extension of the original Galaxy Team, leads the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. Dr. N. Soranzo is a member of the Galaxy Committers since it was formed. |
| Collaborator Contribution | All members of the Galaxy Committers team contribute to the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. |
| Impact | Multiple Galaxy releases: 15.07, 15.10, 16.01, 16.04, 16.10, 17.01, 17.05, 17.09, 18.01, 18.05, 18.09 and 19.01 . Ongoing support of users and deployers of Galaxy servers across various channels, like mailing lists, chat systems, issue trackers. Production and update of freely training materials, hosted at https://training.galaxyproject.org/ This collaboration is multi-disciplinary in scope, involving biology, bioinformatics and medicine. |
| Start Year | 2015 |
| Description | Galaxy Project |
| Organisation | Penn State University |
| Country | United States |
| Sector | Academic/University |
| PI Contribution | Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research. The Galaxy Committers team, established in 2015 as an extension of the original Galaxy Team, leads the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. Dr. N. Soranzo is a member of the Galaxy Committers since it was formed. |
| Collaborator Contribution | All members of the Galaxy Committers team contribute to the development, testing and support of the Galaxy platform and of various Galaxy servers and related infrastructure. |
| Impact | Multiple Galaxy releases: 15.07, 15.10, 16.01, 16.04, 16.10, 17.01, 17.05, 17.09, 18.01, 18.05, 18.09 and 19.01 . Ongoing support of users and deployers of Galaxy servers across various channels, like mailing lists, chat systems, issue trackers. Production and update of freely training materials, hosted at https://training.galaxyproject.org/ This collaboration is multi-disciplinary in scope, involving biology, bioinformatics and medicine. |
| Start Year | 2015 |
| Title | CWL Viewer |
| Description | CWL Viewer is a richly featured web visualisation suite for workflows written in the Common Workflow Language with an aim of facilitating sharing, understanding and discovery as well as encouraging best practices when writing workflows and their tooling. Cite as: https://doi.org/10.7490/f1000research.1114375.1 Technical Report: https://doi.org/10.5281/zenodo.848163 CWL Viewer also won the F1000Research Best Poster Award at ISMB/ECCB 2017 for its poster submission. This project was developed at the eScience Lab at The University of Manchester, with work supported by Bioexcel, funded by the European Union Horizon 2020 program under grant agreement 675728. |
| Type Of Technology | Webtool/Application |
| Year Produced | 2017 |
| Open Source License? | Yes |
| Impact | CWL Viewer also won the F1000Research Best Poster Award at ISMB/ECCB 2017 for its poster submission. It has been adopted by the CWL Communuity as the de facto viewer and will be incorporated into the new EOSC Life Workflow Collaboratory platform, lead by the EU RI ELIXIR. |
| URL | https://view.commonwl.org |
| Title | TeSS |
| Description | One of the goals of ELIXIR (Europe's distributed infrastructure for life-science data) is to train research scientists to better use available computational infrastructures to address critical research questions. This requires access both to face-to-face training opportunities and to disparate training materials and resources, currently dispersed across Europe. TeSS is ELIXIR's training platform, providing a one-stop shop for trainers and trainees, to find online training content such as training materials, events, and interactive tutorials. For ELIXIR nodes, TeSS provides opportunities to promote training events and news, and to contribute to a growing catalogue of materials; for trainers, the portal offers an environment for sharing materials; for trainees, it offers a convenient portal for identifying relevant training events and resources, and navigating specific training tasks via customised workflows |
| Type Of Technology | Webtool/Application |
| Year Produced | 2015 |
| Open Source License? | Yes |
| Impact | TeSS is ELIXIR Research Infrastructure training platform portal for its 23 Nodes and 180 Institutes. It is the flagship training portal for ELIXIR |
| URL | https://tess.elixir-europe.org |
| Title | myExperiment |
| Description | Public repository for retaining and sharing scientific workflows. Social sharing platform. myExperiment makes it easy to find, use and share scientific workflows and other Research Objects, and to build communities. |
| Type Of Technology | Webtool/Application |
| Year Produced | 2008 |
| Open Source License? | Yes |
| Impact | First and arguably only public sharing platform for any workflow system. Over 1000 citations (combined, google scholar) of myExperiment papers. on 12/03/2017 myExperiment has: 10633 registered members, 393 groups, 3894 workflows, 1238 files, 479 packs Used by many EU projects (e.g. BioVeL, SCAPE, HELIO, VPH, IBISBA), US (e.g. FLOSS), companies (e.g. RapidMiner, KNIME) and open platforms (Galaxy) as their workflow repository. over 22 workflow systems represented in repository. In 2018 was proposed by the EU Research Infrastructure ELIXIR as the registry for the European Open Science Cloud. in 2019 four EU projects - BioExcel2, EOSC Life, Synthesys+ and IBISBA1.0 - have pooled together to redevelop myExperiment into myExperiment 2.0 based on the FAIRDOM-SEEK (SEEK4Science) platform developed by the DMMCore and SysMO BBSRC awards. |
| URL | http://myexperiment.org |
| Description | ELIXIR Compute Platform F2F Meeting |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | There were discussion about how to proceed to develop a european cloud infrastructure for life science, both in technical terms and in terms of policies. |
| Year(s) Of Engagement Activity | 2018 |
| Description | 14th International Symposium On Integrative Bioinformatics keynote presentation by Carole Goble |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Keynote presented to an audience of bioinformatics researchers, on topic of making better (research) software through development of more sustainable software development practices, and supporting research infrastructure. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.slideshare.net/carolegoble/better-software-better-service-better-research-the-software-s... |
| Description | 14th International symposium on Integrative Bioinformatics: Better software, better service, better research: The Software Sustainability Institute, ELIXIR and you |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | Carole Goble was Keynote Speaker: 14th International symposium on Integrative Bioinformatics: Better software, better service, better research: The Software Sustainability Institute, ELIXIR and you delivered via LinkedIn |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.slideshare.net/carolegoble/better-software-better-service-better-research-the-software-s... |
| Description | 15th Italian Research Conference on Digital Libraries |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | Carole Goble panelist: 15th Italian Research Conference on Digital Libraries |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://ircdl2019.isti.cnr.it/ |
| Description | 1st ELIXIR-UK Hackathon |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. Nicola Soranzo and Ms Catherine Hunter (together with Gabriella Rustici from the University of Cambridge) organised this hackathon at the University of Cambridge, Cambridge, UK, 11-13/09/2019. The hackathon was attended by 11 participants from across Great Britain, which worked on the integration of various ELIXIR-supported resources, like Bioschemas, FAIRDOM SEEK, FAIRsharing, Galaxy, InterMine, and TeSS. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://docs.google.com/document/d/1xyW0F7LxnDnmwli_Ftvwjo6rXcsEY2gkEksCFNnBbmM/edit?usp=sharing |
| Description | 2020 Galaxy Admin Training |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. Nicola Soranzo was one of the 5 trainers at this workshop at the Barcelona Supercomputing Centre, Barcelona, Spain, 2-6/3/2020. Over the course of 5 intense days, 31 attendees from 4 Continents learned how to install and manage a production-level Galaxy server and related services. |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://galaxyproject.org/events/2020-03-admin/ |
| Description | Biohackathon Europe 2019 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. Nicola Soranzo participated to this hackathon in Seine-Port, France, 18-22/11/2019. During this week of intense hacking and collaboration, Dr. Soranzo contributed to various Galaxy-related projects, in particular to one called "Updating the Galaksio workflow management interface for Galaxy and migrating it to Vue.js" ( https://github.com/elixir-europe/BioHackathon-projects-2019/tree/master/projects/19 ). |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.biohackathon-europe.org/ |
| Description | Dagstuhl Perspectives Workshop on Implementing FAIR Data Infrastructures |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | Four-day meeting of 30 computer scientists, together with digital infrastructure experts from different domains. Meeting aimed to discuss key elements required for the transition of scientific e-infrastructures and services to Open Science from the perspective of computer science as well as from different stakeholder perspectives. Workshop results in a manifesto of recommendations, and an inventory of tools & services for implementing FAIR data principles and other targeted aspects of Open Science in future research data infrastructures and data management services. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.dagstuhl.de/en/program/calendar/semhp/?semnr=18472 |
| Description | ELIXIR 5th Anniversary |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | The "ELIXIR 5th Anniversary - Open Data for Impact and Innovation" event celebrated achievements from the past five years, provided updates on recent activities from the ELIXIR Nodes, Platforms and the ELIXIR Hub, described the priorities for the next Scientific Programme (2019-2023), alongside discussions of future resources, events and challenges. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.elixir-europe.org/events/elixir-5th-anniversary-event-2018 |
| Description | ELIXIR BioHackathon 2018 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. Soranzo participated at "ELIXIR BioHackathon 2018", Campus des berges de Seine, Seine Port, France, 12-16/11/2018 where he collaborated with other researchers on the hackathon project "CWL support in Galaxy" to improve the support of the Common Workflow Language (CWL) in the Galaxy bionformatics analysis platform. Dr. Soranzo also introduced himself as new ELIXIR UK Technical Coordinator to other members of the ELIXIR UK community. |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://bh2018paris.info/ |
| Description | ELIXIR Data Management Network F2F Meeting |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. Nicola Soranzo participated to this meeting in Brussels, Belgium, 26/02/2020.This was the second meeting of the new ELIXIR Data Management Network of experts, which is being established as part of Work Package 1 of the ELIXIR Converge project. |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://www.eventbrite.co.uk/e/elixir-converge-kick-off-meeting-tickets-84730383859 |
| Description | ELIXIR Data Management Network Workshop |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. Nicola Soranzo participated to this workshop in Noordwijkerhout, Netherlands, 14-15/10/2019. This meeting had the goal of establishing a network of Data Management experts across ELIXIR Nodes and beyond, in particular as part of the Work Package 1 of the ELIXIR Converge project. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://docs.google.com/document/d/1D7Tuwl_9Yg1JYtE6hEHko0NLCmhPTf5qCbevT5RF33E/edit?usp=sharing |
| Description | ELIXIR Europe All Hands 2019 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | Annual meeting to discuss how Elixir can benefit industry and how industry can engage. Additional logistical support for registration, provided by Earlham Institutes Advanced Training team (NC4) |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://elixir-europe.org/events/elixir-excelerate-all-hands-meeting-2019 |
| Description | ELIXIR Technical and Training Coordinators annual face-to-face meeting |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | Around 50 staff from ELIXIR Nodes and the ELIXIR Hub meet for an annual face-to-face meeting to build relationships and plan and develop ideas for future activities of ELIXIR in the context of technical developments and training activities. |
| Year(s) Of Engagement Activity | 2016,2017,2018 |
| Description | ELIXIR Training/Technical Coordinators Groups F2F Meeting 2019 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. Nicola Soranzo participated to this meeting in Barcelona, Spain, 12-13/11/2019, in his role of Technical Coordinator for ELIXIR-UK. This is the yearly face-to-face meeting of the Technical and Training Coordinators of all ELIXIR Nodes. During this event we discussed Human Genomics and Translational Data activities, the new concept of Service Bundles, the ELIXIR Industrial strategy, and the plan for the upcoming ELIXIR Converge project. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://docs.google.com/document/d/1CBFtxj8aVqC56ym5psS78-5ZPxqilhhyhUDQbmc3f4c/edit?usp=sharing |
| Description | ELIXIR UK SIAB Meeting |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | The ELIXIR UK SIAB met with key Management to discuss future plans of ELIXIR UK SIAB: Jason Williams - CSHL Paul Kersey - Kew Gardens Patricia Palagi - SIB Elen McDonagh - Genomics Emgland Fiona Nielson - Respoitive |
| Year(s) Of Engagement Activity | 2019 |
| Description | ELIXIR Workshop for Galaxy training material and skills improvement |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. N. Soranzo, Mr. A. Thanki and Dr. E. Angiolini organised the workshop, which was attended by 16 participants coming from across Europe. During the first day, participants attended a Train-the-Trainer course delivered by Sarah Morgan (EBI, ELIXIR Training Platform). In the following 2 days, participants worked together and in groups on improving and extending the existing training materials for teaching Galaxy. A report is available at https://galaxyproject.eu/posts/2018/06/05/gtn-hackathon/ |
| Year(s) Of Engagement Activity | 2018 |
| URL | http://www.earlham.ac.uk/elixir-workshop-galaxy-training-material-and-skills-improvement |
| Description | ELIXIR-UK All Hands 2019 |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Industry/Business |
| Results and Impact | This award provided the majority of funding for the logistics (accommodation, room hire, catering, travel) for the event. ELIXIR-UK Member Organisation staff were invited to join to learn more about ELIXIR-UK activities over the previous year, present their work, and discuss together ideas for the future of ELIXIR-UK. Funders, staff from potential future ELIXIR-UK Member Organisations, and representatives from the ELIXIR Hub also participated. Aim was to promote networking amongst the ELIXIR-UK community, and to further develop plans for future work of ELIXIR-UK. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.earlham.ac.uk/elixir-uk-all-hands-2019 |
| Description | ELIXIR-UK All Hands Meeting |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Industry/Business |
| Results and Impact | This award provided the majority of funding for the logistics (accommodation, room hire, catering, travel) for the event. ELIXIR-UK Member Organisation staff were invited to join to learn more about ELIXIR-UK activities over the previous year, present their work, and discuss together ideas for the future of ELIXIR-UK. Funders, staff from potential future ELIXIR-UK Member Organisations, and representatives from the ELIXIR Hub also participated. Aim was to promote networking amongst the ELIXIR-UK community, and to further develop plans for future work of ELIXIR-UK. |
| Year(s) Of Engagement Activity | 2016,2017,2018 |
| URL | http://www.earlham.ac.uk/elixir-all-hands-2018 |
| Description | ELIXIR-UK Node Exec Meeting with UKRI |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Industry/Business |
| Results and Impact | ELIXIR-UK Node Exec Meeting with UKRI: Neil hall, Carole Goble |
| Year(s) Of Engagement Activity | 2018 |
| Description | ELIXIR-UK Node Exec Meeting with UKRI 17th December 2019 |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Industry/Business |
| Results and Impact | ELIXIR-UK Node Exec Meeting with UKRI: Neil Hall and Carole Goble |
| Year(s) Of Engagement Activity | 2019 |
| Description | ELIXIR-UK Node Exec Meeting with UKRI 31st May 2019 |
| Form Of Engagement Activity | A formal working group, expert panel or dialogue |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Industry/Business |
| Results and Impact | ELIXIR-UK Node Exec Meeting with UKRI: Neil hall, Carole Goble |
| Year(s) Of Engagement Activity | 2019 |
| Description | Elixir industry all hands meeting |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Industry/Business |
| Results and Impact | meeting to discuss how elixir can benefit industry and how industry can engage. |
| Year(s) Of Engagement Activity | 2018 |
| Description | European Open Science Forum |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | Carole Goble was a panelist: European Open Science Forum; on panels for (i) A New Kind of Science? Supporting scientists at all career stages in the future' and (ii) "Is the current measure of excellence perverting science? A data deluge is coming, it is time to act" |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.esof.eu/en/ |
| Description | Feature article on genomics in the Easton Daily Press |
| Form Of Engagement Activity | A magazine, newsletter or online publication |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Public/other audiences |
| Results and Impact | The Article was to cover the research activity at the Earlham Institute and at the Norwich Research park and how it would impact the general public |
| Year(s) Of Engagement Activity | 2019 |
| Description | Implementing FAIR Data Infrastructures |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Industry/Business |
| Results and Impact | Carole Goble was a report contributor: Implementing FAIR Data Infrastructures |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.dagstuhl.de/en/program/calendar/semhp/?semnr=18472 |
| Description | Keynote - 25th Pacific Symposium in Biocomputing 2020 |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | Keynote: Building the FAIR Research Commons for Life Sciences: the pain, the glory |
| Year(s) Of Engagement Activity | 2020 |
| URL | https://psb.stanford.edu/previous/psb20/ |
| Description | Poster: ELIXIR-UK Node (ELIXIR All Hands meeting 2019) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | International |
| Primary Audience | Professional Practitioners |
| Results and Impact | This poster was presented by Prof. Neil Hall, Dr. Nicola Soranzo and Catherine Hunter at the ELIXIR All Hands meeting 2019, Lisbon, Portugal on 19th June 2019. The poster presents ELIXIR-UK and its mission to deliver on the national Funders vision for FAIR data infrastructure within the Life Sciences. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.eventbrite.co.uk/e/elixir-excelerate-all-hands-meeting-lisbon-2019-registration-55503335... |
| Description | Poster: Sharing data to reduce costs and time needed to deliver life science innovation (EI Innovate 2019) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Industry/Business |
| Results and Impact | This poster was prepared by Dr. Nicola Soranzo and presented by Prof. Neil Hall at the EI Innovate event, Earlham Institute, Norwich, UK, 13/11/2019. The poster describes ELIXIR-UK, its goals and potential for technology transfer, and its role in bioinformatics training in the UK. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://www.earlham.ac.uk/innovate2019-0 |
| Description | Presentation: The ELIXIR Galaxy Community |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Industry/Business |
| Results and Impact | Presented "The ELIXIR Galaxy Community" at the event "ELIXIR Innovation and SME Forum: Enabling Discoverability in Bio-Data Innovation" in the "Challenges in tools development" session, and participated in the following round table. Report of the event is available at https://www.elixir-europe.org/news/elixir-innovation-and-sme-forum-promotes-discoverability-biomedical-data |
| Year(s) Of Engagement Activity | 2018 |
| URL | https://www.elixir-europe.org/events/elixir-innovation-and-sme-forum-enabling-discoverability-bio-da... |
| Description | Talk: Galaxy: linking ELIXIR Communities and Platforms (ELIXIR UK All Hands 2018) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. N. Soranzo presented "Galaxy: linking ELIXIR Communities and Platforms" at the "ELIXIR UK All Hands 2018", Birmingham, UK, 28-29/11/2018, had some discussion with other professional working in the same area, and made plans for further development. Dr. Soranzo also introduced himself as new ELIXIR UK Technical Coordinator to other members of the ELIXIR UK community. |
| Year(s) Of Engagement Activity | 2018 |
| URL | http://www.earlham.ac.uk/elixir-all-hands-2018 |
| Description | Talk: Technical Coordinator update (ELIXIR-UK All Hands 2019) |
| Form Of Engagement Activity | A talk or presentation |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Professional Practitioners |
| Results and Impact | Dr. Nicola Soranzo presented this talk at the ELIXIR-UK All Hands 2019, Dundee, UK, 9-11/12/2019. In this talk, Dr. Soranzo recounted his activities as Technical Coordinator for ELIXIR-UK and illustrated the outcomes of recent events like the 1st ELIXIR-UK Hackathon and BioHackathon Europe 2019. |
| Year(s) Of Engagement Activity | 2019 |
| URL | https://docs.google.com/presentation/d/1B7OdKVvOLfXYjk-WBaDSVDBAnI-NCEm5l3GwBAwNfYg/edit?usp=sharing |
| Description | Techology Day at Norwich Science Festival |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | Regional |
| Primary Audience | Public/other audiences |
| Results and Impact | 7500 members of the general public attended Nature Day at Norwich Science Festival. A number of activities were available to engage the general public with the work of the institute. A number of talks/presentations were scheduled also. |
| Year(s) Of Engagement Activity | 2018 |