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Strategic Importance of ELIXIR A perspective from the UK. Professor Doug Kell CEO, BBSRC. UK Research Councils. UK Government Department of Business, Innovation and Skills.

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Strategic importance of elixir a perspective from the uk

Strategic Importance of ELIXIR A perspective from the UK

Professor Doug Kell

CEO, BBSRC


UK Research Councils

UK Government

Department of Business, Innovation and Skills


UK Research Councils (RCUK) - missionsBBSRC leads UK coordination for ELIXIR on behalf of all 3 sponsoring Research Councils (and in liaison with Wellcome Trust)

UK Government’s principal funder of basic and strategic biological research

Promote research into all areas of medical and related science with the aims of improving the health and quality of life of the UK public and contributing to the wealth of the nation

To gather and apply knowledge, improve understanding and predict the behaviour of the natural environment and its resources


UK leads the world in Biosciences

Times Higher Education, 10th June 2010

  • UK is ranked 1st in 7 scientific areas

  • …of which 6 are flavours of Bioscience, and all other biology is a close 2nd


Westerhoff palsson nbt 22 1249 52 2004
Westerhoff & Palsson NBT 22, 1249-52 (2004)

Research evolution

‘molecular’

Multi-/inter-

disciplinary

ARPANET

1973

WEB 2.0/

Semantic

Web

2000s

‘numerical’

WEB 1.0

1990s

Google

1998

Microsoft

1970s


Data rich science need for data management and multidisciplinary approaches
Data Rich ScienceNeed for data management and multidisciplinary approaches


Biological discovery is increasingly being driven by disruptive technologies that generate massive and complex datasets. A new generation of ‘biologist friendly’ ICT solutions are required to underpin our future world-class bioscience research.”


Information age
Information Age

Total number of scientific papers added to Medline per year

H1N1 Outbreak

Smith, Nature 2009

Rohr, Nature 2008


Strategic Plan 2010 – 2015

Exploiting new ways of working

  • Innovative ways of working in an era of rapid technology change, the next generation internet, and quantitative and computational bioscience

  • Bioscience IS big data science

  • New tools and facilities

  • Data rich bioscience

    • Standards

    • Sharing

    • interoperability

  • Systems biology



Data intensive science
Data-intensive science

A qualitative change in science


Current model
Current Model

Scientist / User

Sequencing Centre

Storage

High-Performanance Cluster

Sequencing

Instrument

Sequencing

Instrument

Sequencing

Instrument

ACGTTTCCC….

ACGTTTCCC….

ACGTTTCCC….

Storage

Download

Public Repository

Multi Peta-byte

High-Performanance storage

Submission

Courtesy Mario Caccamo, TGAC


Sequencing Node

Sequencing

Instrument

Sequencing

Instrument

Sequencing

Instrument

VM test enviromemt

ACGTTTCCC….

ACGTTTCCC….

ACGTTTCCC….

Staging Storage

LIMS

Metadata

Primary Analysis

QA

Assemblies

Analysis Output

User

Cloud infrastructure

Multi Peta-byte

High-Performanance storage

High-Performanance Cluster

Analysis Submission

Virtual Machine Pool

Courtesy Mario

Caccamo, TGAC



….never before have researchers been able to address such a breadth and depth of biological questions….

BBSRC Strategic Plan 2010 – 2015

The Age of Bioscience

Driven by new tools and technologies


Strategic Plan 2010 – 2015 a breadth and depth of biological questions….

Three major research priorities

Bioenergy and Industrial Biotechnology

Food Security

Basic bioscience underpinning health


Strategic Plan 2010 – 2015 a breadth and depth of biological questions….

World-class bioscience

Three major research priorities

Three crucial underpinning themes


BBSRC Strategic Plan 2010-2015 a breadth and depth of biological questions….


Strategic Plan 2010 – 2015 a breadth and depth of biological questions….

World-class bioscience

Facilities

Quality

Skills


Strategic Plan 2010 – 2015 a breadth and depth of biological questions….

Three crucial underpinning themes

Knowledge exchange, innovation and skills

Exploiting new ways of working

Partnerships


Strategic Plan 2010 – 2015 a breadth and depth of biological questions….

Knowledge exchange, innovation and skills

  • Ensuring that our world-class science and skilled people have maximum impact

  • Boosting the UK economy, connecting to policy and improving quality of life.

  • Skills and capabilities

  • KE and translation

  • Promoting innovation

  • Culture change


Strategic Plan 2010 – 2015 a breadth and depth of biological questions….

Exploiting new ways of working

  • Innovative ways of working in an era of rapid technology change, the next generation internet, and quantitative and computational bioscience

  • Bioscience IS big data science

  • New tools and facilities

  • Data rich bioscience

    • Standards

    • Sharing

    • interoperability

  • Systems biology


Strategic Plan 2010 – 2015 a breadth and depth of biological questions….

Partnerships

  • Working with our many stakeholders and other funders, nationally and internationally, to deliver our exciting vision for UK bioscience

  • Collaborative funding

  • Enhancing impact

  • Engaging society

  • International links


Exponential growth in data
Exponential growth in data… a breadth and depth of biological questions….

Cannot equate to exponential growth in funding, so

  • Link budgets for data generation and data processing

    • Only produce as much data as you can deal with

  • Take steps to control IT resource requirements.

    • Develop policies for which data are to be kept (& which not)

    • Develop data compression techniques

  • Take steps to ensure joint solutions to provide value.

    • Identify and pursue options for coordinated data infrastructure provision.

    • Focus on translation of information, knowledge and expertise between academic and commercial sectors


Uk large facilities capital fund

UK Large Facilities Capital Fund a breadth and depth of biological questions….


Overview of uk large facilities capital fund
Overview of UK Large Facilities Capital Fund a breadth and depth of biological questions….

  • Fund covers major Capital projects across all Research Councils

  • Prioritisation process every 2 years - Current exercise ongoing

  • Projects listed in RCUK Large Facilities Roadmap – renewed in 2010

  • Future of LFCF to be reviewed as part of the Government-wide Comprehensive Spending Review


Major uk capital investments in htp sequencing capacity
Major UK Capital Investments in HTP Sequencing Capacity… a breadth and depth of biological questions….

EMBL-EBI

Technical Hub & Data Capacity

BBSRC

The Genome Analysis Centre, Norwich

Other significant investments

(genomics, and systems biology)

MRC

Four HTP Sequencing Hubs

NERC

Biomolecular Analysis Facility & Environmental Bioinformatics Centres

The Wellcome Trust

Sanger Centre

…best supported by centralised data capability


Lfcf proposal for uk set within europe
LFCF Proposal for UK, set within Europe a breadth and depth of biological questions…..

  • LFCF support meets ongoing UK obligations to support of EBI facilities as host country.

  • Size of LFCF request for data facility derived from anticipated UK requirements.

  • LFCF funding would also provide UK contribution to ELIXIR project.


Key drivers for this proposal
Key Drivers for this proposal a breadth and depth of biological questions….

  • To maintain high-quality service for fast-expanding user base

    • To serve academia & industry

    • To position the UK to derive maximum benefits from modern biological, medical and environmental research.

  • To fulfil UK requirements for data storage & handling, while anticipating wider European participation.

  • To drive discovery research in UK through worldwide data

  • To help secure ongoing European Support for ELIXIR

  • To provide support for UK & European Industry

    • E.g. Pharma actively seeking strong public–private partnerships to utilise and enhance public data resources for pre-competitive drug discovery.

    • Costs to industry users of server downtime estimated at € 1.3M per day


Request to uk large facilities capital fund
Request to UK Large Facilities Capital Fund a breadth and depth of biological questions….

Data Centre

  • Phase 1 for 2010-2015 (£10M) already supportedvia BIS allocation to BBSRC

  • Phase 2 for 2011-2020 (£51M )

    • Flexible plan for growth of compute and storage

    • Provides robust (24/7) data provision and support for users meeting recognised commercial standards

      Technical Hub

  • Biological Information Services in Europe - from 2012 (£24M)

    • Accommodation for 200 people (inc EMBL Staff and visiting researchers)

    • Training facilities for academia

    • Industry liaison suite

    • Potential European ELIXIR Secretariat


  • Key perceived benefits of centralised lfcf investment
    Key perceived benefits of centralised LFCF investment a breadth and depth of biological questions….

    Delivery of a comprehensive, universal and integrated suite of biomolecular and related databases to an ever widening range of users

    Improved ability in understanding the molecular basis of life (including the Human Genome and Human Genetic Variation) and its influence on disease, nutrition, and well being.

    Continued and improved support for pharma and biotech companies and life sciences SMEs to remain competitive through provision of access to world class bioinformatics resources, training courses and industry programmes.

    Support for close collaboration between academia and industry, fostering better translation of research discoveries into industry and clinic.

    Improvements in pharmaceuticals for humans and animals, more insightful crop breeding, new developments in nutraceuticals and consumer products, the use of DNA fingerprinting in forensics and many many more.


    • Pharma a breadth and depth of biological questions…. Target Validation

  • Disease resistant farm animals and crops

  • Novel vaccines and diagnostics

  • Personalised prognostics and therapeutics

  • Supporting SMEs

    • Ageing Research;

  • Climate Change;

  • Food Security/Agriculture;

  • Combating Infectious Diseases;

  • Systems Biology;

  • Translation to Clinical Research

  • Enhancing Interdisciplinarity

  • Promoting Economic

    Return

    Research

    Council

    Priorities

    Enhancing Value

    Benefits

    Added value from data collectionsthrough greater integration/avoiding duplication.

    • Realising ELIXIR

  • International Collaborations

  • European Grand Challenges

    • Improved sustainability of HEIs and Institutes

  • Enhance exploitation of data

  • Leverage of inward investment

  • Realising Potential of Bioinformatics Resources


    Public Research a breadth and depth of biological questions….

    Data Collections

    Industrial Data

    Collections

    Data Storage

    and Integration

    Including:

    Pharma

    Agribiotech

    SMEs

    Resilient and Robust

    Data Capability

    Data analysis tools

    Training

    and Workshops

    The Virtuous Circle – Positive Feedback

    Including:

    HTS Centres

    Genomics & Systems Biology Investments

    Other data generators at HEIs and Institutes


    Strategic importance of elixir a perspective from the uk1

    Strategic Importance of ELIXIR a breadth and depth of biological questions….A perspective from the UK

    Professor Doug Kell

    CEO, BBSRC


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