ELIXIR-UK
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ELIXIR, ELIXIR-UK and how you can get involved Carole Goble Head of Node, ELIXIR-UK http://elixir-uk.org GenomeScience 2016, Liverpool, UK, 31 Aug 2016
Transcript of ELIXIR-UK
ELIXIR, ELIXIR-UKand how you can get involved
Carole GobleHead of Node, ELIXIR-UK
http://elixir-uk.org
GenomeScience 2016, Liverpool, UK, 31 Aug 2016
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agriculture
medicine
bioindustries
environment
ELIXIR connects national centres and EMBL-EBI to build a sustainable European infrastructure for biological research data.
ELIXIR underpins life science research – across academia and industry.
Europe have 500 000 life science researchersAll produce data. A lot of data.
http://omicsmaps.com
• Simplifies access to quality-controlled data, services
• Enables life science researchers to make the most of the rapidly growing life science data
• Ensures long-term sustainability of Europe’s core
• Facilitates open access and open science in life science research
A robust infrastructure for biological information.A bigger task than any individual organisation or nation can take on alone 20 ELIXIR
membersmajor bioinformaticsservice providers (~150)
Co-operation Long term support
A robust infrastructure for biological information.A bigger task than Europe can take onNIH BD2K Programme
Human Data BeaconsNSF and NIH InfrastructuresCyVerse, dataONE
EMBL Australia
Implemented as a network of national nodesa distributed coordinated infrastructure• ELIXIR Nodes are
funded nationally
• ELIXIR Nodes build on national strengths and priorities
• ELIXIR Nodes support national research with data management
• ELIXIR Nodes provides a national framework for long-term resource management.
Nodes … commit services, lead platforms, coordinate activities, participate in funded awards
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Data
Tools
Interoperability
Compute
Training
Chris Ponting Rita Hendricusdottir
Carole Goble
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ELIXIR Selected Activities and Achievements• Bio.tools Registry• Indicators for Core
Data Resources • Harmonisation of
identifier resolution services Europe-USA
• Software and Data Carpentry Training
• Human data Beacons• Human Protein Atlas
– Uniprot interoperability
• A local EGA …
ELIXIR Authorisation and Authentication Infrastructure (AAI)ELIXIR AAI allows individual researchers to access different services across ELIXIR, using an ELIXIR identity and a single sign-on process: www.elixir-europe.org/services/compute/aai
Accessible data: ELIXIR – IMI OncoTrack• Scoping study to understand long-term knowledge
management requirements• Data storage, Meta data mappings, Data governance -
Consent and Access management
FAIRFindable
Accessible
Interoperable
ReusableIntelligible
Reproducible
Citable
Trackable & Countable
ELIXIR-UK Node • Oversee UK’s interests in ELIXIR
• Participate and lead ELIXIR activities and related global initiatives
• Showcase, contribute and deliver UK services and resources to ELIXIR and related international consortia
• Showcase and channel ELIXIR services and activities to the UK
• Drive and support UK life science data infrastructure community and infrastructure sustainability.
• Reflect strategic emphasis of our major funders
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Formal Agreements, Service Delivery Plans
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ELIXIR Consortium Agreement
Lead institut
eEarlham Institute
Manchester
Edinburgh RoslinBirmingha
m
Cambridge
Heriot-Watt
Dundee
LiverpoolImperial
Newcastle
Nottingham
UK Node united by Collaboration Agreement
Oxford
RothamstedUCL
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Head of NodeCo-lead ELIXIR Interop
PlatformCarole Goble
Node CoordinatorJohn Hancock
Chris PontingCo-lead ELIXIR Training PlatformPI training grant
Rita HendricusdottirTraining Coordinator
Tim StittCompute Coordinator
Terri AttwoodGOBLET LiaisonTeSS portal lead
Susanna SansoneRDA LiaisonTeSS co-lead
Key Node roles populated by membership
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Head of Node
TrainingCoordinator
TechnicalCoordinator
NodeCoordinator
Working GroupsSpecialist roles
Training Sectors
Service providers
Activities
Liaisons
Staffing and Funding Profile
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Node Core Coordination Office
Node Grants
UK training node pump-primeEU EXCELERATE, CORBEL
In Kind Members awards for activities and services
Members voluntary in kind
ELIXIR-Hub Contracts
Key Staff funded by grant awardsLee Larcombe
Training Coordinator for Research ScienceEdinburgh
Rita HendricusdottirTraining Outreach ManagerEdinburgh
Niall Beard TeSS PortalTraining Coordinator for Infrastructure Tech Manchester
Milo ThurstonTeSS PortalBioSharingOxford
GabriellaRustici
Training QualityCambridge
Anna Leida Mölder
Identifiers Manchester
MetadataManchester
ELIXIR Services: A rigorous selection process and a National commitment
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ELIXIR Services: Backbone of the ELIXIR life science data infrastructure providing stable access to biological dataELIXIR Core
Resources: Flagships, examples of excellenceData, Tools, Interop, Compute, Training
Node funded in the Node Service Delivery Plan
Implementation Studies
Long Term Infrastructure Services
Commissioned (e.g. Beacons) undertaken by Nodes/Hub
Node Servicesnot included in the Node Application Services under development through projects undertaken by Nodes/HubNon-node
servicese.g. Galaxy
ELIXIR-UK ELIXIR Services
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Training
Interoperability
Data & ToolsPhyre2CATH/Gene3DJalView
Protein Structure and Function The Mouse Atlas
HuDSeNChick Atlas ….
Human Health and DiseaseIUPHAR/BPS Guide to PHARMACOLOGY
Farmed Animals and PlantsPHI-baseEnsembl farmed and domestic animals
Metadata Standards
ISATools and CommonsBioSharing
Interoperability FrameworksInterMine
Training Services
Bioinformatics Training Program (Cambridge)Birmingham Metabolomics Training Centre (BMTC)Edinburgh Genomics Advanced Training in Bioinformatics
Training InfrastructureTeSS ELIXIR training portal
Expression Atlases
Benefits of offering a service• Influence the development of a major effort in data
integration• Exposure to a wide range of potential users and
collaborators across Europe and globally• Recognition as a core data resource on a par with
EBI and SIB resources• Potential funding (a tunnel post-Brexit)
• Provide your service on a stable (sustainable) basis• Work towards integration with ELIXIR interoperability
standards• Participate in ELIXIR activities
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ELIXIR-UK ELIXIR Activities
Training
Interoperability
Data & Tools
Pan-ELIXIR UKInternational
co-Lead Training Platform
Chair Training Coordinators GroupTraining PortalTraining quality
Software CarpentryData CarpentryNIH BD2K Training Coordination CentreGOBLET
BioSchemas.org
BioSchemas.orgSamples specification
Biosharing Metadata Standards Catalogue
UKBioBanking
co-lead Interoperability Platform
Identifier services
Data Citation Services - Force11
Dataset description/discovery - NIH BD2K
Common Workflow Language – CoE BioExcel
Software practice metrics
Galaxy Recommendations
Software / Data Carpentry workshops
StaTS project training in statistics.Genome3D, Metabolomics
FAIR Data Principles Software Sustainability Institute
NHS Clinical Genomics
Farr Institute
Standards - CHARME Cost Action, Research Data Alliance
EuroBioimaging
Coming up…..
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12-14 September 2016 , Manchester, UK 4th Workshop on Sustainable Software for Science: Practice and Experiences
25-26 October 2016, Rome, Italy Combined CHARME – EMBnet and NETTAB 2016 Workshop, ‘Reproducibility, standards and SOP in bioinformatics‘
7-8 November 2016, Harpenden, UKELIXIR-UK All-Hands meeting
19-20 September 2016, CambridgeSoftware Carpentry R instructor training
Join our mailing lists
Take part in our telcons
Set up a working group
Propose a Service
Help us overhaul the website!
5-8 December 2016, Amsterdam, NL9th SWAT4LS Workshop
20-21 October 2016, Barcelona, SpainBioExcel: workflow training for computational biomolecular research
