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UK PubMed Central within the open access movement

Richard Boulderstone Director of e-Strategy and Programmes

British Library

BioMed Central Colloquium

Thursday 8th February 2007, The Royal College of Physicians, London, UK

UKPMC

‘We exist for everyone who wants todo research – for academic, personal,or commercial purposes.’ - BL Strategy 2005/8

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‘This is the life blood of research and innovation’

3 main funding streams:•DCMS grant-in-aid (£89m) •Annual trading income (£25m)•Donations (£4m)

Generates value to the UK economy each year of 4.4 times public funding

Helping people advance knowledge to enrich lives

National library of the UK.

Serves researchers, business, libraries, education & the general public

Collection includes over 2m sound recordings, 5m reports, theses and conference papers, the world’s largest patents collection (c.50m)

The largest document supply service in the world. Secure e-delivery and ‘just in time’ digitisation enables desktop delivery within 2 hours.

1.4m articles delivered in 2005/6 (80% STM)

Over 250 years of collecting. Beneficiary of legal deposit, and £15m annual acquisitions budget

3 main sites in London and Yorkshire. 2,250 staff

Collection fills over 600km of shelving and grows at 11km per year

1.25 Tb of digital material through voluntary deposit

Science and Innovation Investment Framework 2004-2014, H.M. Treasury (2004) Information infrastructure2.23 The growing UK research base must have ready and efficient access to information of all kinds – such as experimental data sets, journals, theses, conference proceedings and patents. This is the life blood of research and innovation.

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UKPMC Project

Based on PubMed Central (PMC) – the US National Institute of Health (NIH) free digital archive of biomedical and life sciences journal literature

Provides a stable, permanent and free-to-access online digital archive of full-text, peer-reviewed research publications.

Driven by deposit mandates and recommendations from the funders

Launched in January 2007 Mirroring the PMC database Implementing a manuscript submission system - UKMSS - to

enable UK scientists to submit their research papers for inclusion in UKPMC.

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UKPMC – The Partnership

Information Services

Core Biology

Data

Biomedical andBioinformatics

Research

Document Management and

Publishing

Text Mining and

Data Linking

Document Storage and

Access

Resource Discovery

University of Manchester• Hosts the service• Builds ‘small-scale’ developments• Engages the HE community• Shapes future R&D

The British Library• Takes prime contractor role• Manages the grantee database• Marks up author submissions• Creates the marketing collateral• Promotes to the broader user community• Provides long-term preservation

European Bioinformatics Institute• Creates the links to the data • Integrates it with other repositories• Develops the discovery interface

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UKPMC - Building on the Team’s experience & expertise

UKPMC is a natural fit with current business of the team members

The British Library Builds on existing information services and relationships with the scientific

community including NLM (2,000,000 STM Articles Delivered In 2005). Benefits from 10 years of expertise in the ingest, storage and preservation

of e-journals

The University of Manchester Gains from the University’s reputation as the major academic centre for

bioinformatics (5 & 5* Ratings in RAE 2001) Capitalises on MIMAS’ role as a national data centre hosting and

supporting a complex blend of services for the scientific community (e.g. CrossFire and ISI Web of Knowledge)

The European Bioinformatics Institute Builds on the informatics services provided to the biomedical community

over the past 20 years including the biology datasets hosted at EBI Exploits existing literature-data links and services based on text mining

technologies and the close relationship with NCBI

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Enhanced linking (EBI + other

datasets)

Preservation

Grant reporting tool

II

Phase 3

Full text searching

Integration with

repositories

UKPMC build

2008-2010

Small-scale developments

QA Ingest

MarketingGrant

reporting tool

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Phase 2

Implement mirror

Phase 1

January 2007

2007-2008

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Current Status

Manchester Purchased IT infrastructure to support UKPMC, includes:

Repository for NLM DTD formatted papers (800,000 – 2 TBytes) Submission system (NIHMS)

Testing functionality in ‘standalone’ IT environment (outside NCBI) British Library

Hired Marketing professional and creating marketing plan Selected 3rd party vendor for NLM DTD mark up and created QA

process Built grants database from funding organisations Set up help desk for authors

EBI Defining strategy for future development of UKPMC

Initial Go Live = 8 January 2007

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Early Use of UKPMC

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Integrated with

community interfaces

Enhanced content

BLcatalogue

Accessed via bibliographic

data

Publisher sites

Local ‘MEDLINE plus’

ETOC

Discovery interfaces (e.g. Intute)

Advanced text/data mining &

visualisation

Social publishing forums & new

metrics for authors/funders

e-science workbenches

Data supporting interdisciplinary

research

UKPMC – embedding in the European bioscience environment

UKPMC

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The Vision

Placing UKPMC at the centre of UK bioscience research Creating a ‘European PubMed’ – an entry point to data and

text tailored to the European domain Expanding the content available by providing links to the

British Library’s extensive back-catalogue and negotiating UKPMC deposition with publishers

Supplementing the EBI datasets by linking to the UKPMC research archive

Linking documents to scientific data to support the interdisciplinary nature of research

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The Vision

Embedding the service within the research environment – e-Framework, e-science and Intute

Extending knowledge through the mining and visualising of data, using tools being developed at EBI and Manchester

Providing new metrics for authors and funders to help assess the quality of research

Supporting ‘social publishing’, novel peer-review mechanisms and innovative publication discussion forums

Ensuring the permanence of UKPMC by preserving its content in the British Library’s Digital Object Management preservation store

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Summary

Placing UKPMC at the centre of bioscience research Builds on the existing strengths and synergy of the partners

Community Delivery Preservation

Provides a platform for the development of new services to the UK and European biomedical research communities

Gives us an opportunity to explore new avenues of scholarly communication and ways of managing the outputs of research