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Adding Value to Data and Information: Moving towards a Science Commons?

Dr Liz Lyon

Director, UKOLN

Science Commons Workshop, Brussels, September 2006.

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Scholarship today? OA landscape

                                                             

A centre of expertise in digital information management

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http://www.flickr.com/photos/dmclean/239158788/in/photostream/

15 September 2006

Architecture of Participation?

Data-centric 2020 vision

Reference datasets as infrastructure?

(Very simple) e-Research Cycle

Formulate hypothesis / ideas, test, experiment, observe: data creation,

collection & capture

Adding value: Data linking, annotation,

visualisation, simulation

(New) knowledge extraction: data mining, modelling, analysis, synthesis

e-Infrastructure

Open access

Collaboration

Scholarly communications: data disclosure, publication, citation, discovery, re-use

Data management storage & validation: description, deposit,

self-archiving, preservation,

certification

Data processing

Data processingData processing

Data processing

Data processing

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Understanding the research process: workflows• UK JISC-funded activity• Project StORe: Source-to-Output Repositories (Edinburgh) • RepoMMan: Repository Metadata and Management (Hull)

– Primary data : research publications

– Survey questionnaire, activity diagrams

e-Scientist desktop?

Slide: Carole Goble

                                                             

A centre of expertise in digital information management

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Data capture

Deposit scenario (…part of….)1. Produce strategy for synthesis (=idea)

2. Submit plan to SmartTea system (incl. identifiers)

3. Retrieve and follow instructions (sub-workflow?)

4. Experimental synthesis metadata automatically recorded on instruments (Smart Lab)

5. Create record for synthesised sample (+ proposed chemical identifier) in R4L laboratory data management system

6. Run spectral analyses on sample capturing further analysis metadata (incl. time-stamp, analysis software version, researcher details etc.)

7. Save spectrum in native and common formats

8. Invoke R4L data capture service and deposit files + metadata in laboratory repository…

RAW DATA DERIVED DATA RESULTS DATA

The R4L Repository

Deposit

Search / Browse

Create new compound Add experiment data and metadata

Slide: Simon Coles

eBank UK Project• Promoting open access data in an institutional repository• Adding value through linking from data to derived publication• Embedding data service in learning workflows: pedagogy• UKOLN (lead), University of Southampton, University of

Manchester

http://www.ukoln.ac.uk/projects/ebank-uk/

e-Research workflows

Aggregator services

Institutional data repositories

Data curation & preservation: databases & databanks

Validation

Harvest

Data creation & capture in “Smart lab”

Deposit

Publishers: peer-review journals, conference proceedings

Publication

Validation

Data analysis, transformation, mining, modelling

Search, harvest

Presentation services: portals

Data discovery, linking, citation

Linking, citation

Laboratory repository

Deposit

(Chemistry Central)

e-Crystals Federation model

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Digital repositories, OA & preservation• Long-term access: trust, responsibility, policy• Trusted DR Audit Checklist for Certification Draft Research Libraries

Group-NARA Taskforce 2005• Self-certification: DINI-Zertifikat

• UK Digital Curation Centre: advice, tools & services• RepInfo Registry

• EU CASPAR Integrated Project

• Task Force on the Permanent Access to the Records of Science

http://www.dcc.ac.uk/

http://www.casparpreserves.info/pages/1/index.htm

http://tfpa.kb.nl/

Data, metadata and interdisciplinary discovery

• Validation, publication & discovery of data models & schema

• Metadata packaging standards– METS, MPEG 21 DIDL– Complex object model?

• Semantic descriptions– Formal high-level and domain ontologies

• ePrints DC Application Profile http://www.ukoln.ac.uk/repositories/digirep/index/Eprints_Application_Profile

• eBank Application Profile crystallography data http://www.ukoln.ac.uk/projects/ebank-uk/schemas/

• UK Intute IR search service (eprints)• Informal social network approaches

“folksonomies”

Persistent identifiers for data citation• How will they be used? We need use cases: depositor,

author, service provider, researcher, publisher?• Schemes: DOI, Handle, ARK, PURL• Publication & citation of scientific primary data project

National Library for Science & Technology (TIB), University of Hanover, Germany. STD-DOI Project DOI registry for datasets http://www.std-doi.de

• eBank exemplar• DOIs from TIB http://dx.doi.org/10 .1594/ecrystals.chem.soton.ac.uk/145

• Data citation policy http://ecrystals.chem.soton.ac.uk/rights.html

Discovering data:

Coles, S.J., Day, N.E., Murray-Rust, P., Rzepa, H.S., Zhang, Y., Org. Biomol. Chem., 2005, (10),1832-1834. DOI: 10.1039/b502828k

• Domain identifier: International Chemical Identifier (INChI) code• Google molecule using INChISlide from Simon Coles

Adding value: repository services• Tools: for deposit, normalisation, manipulation, transformation…..

• Linking, annotation, visualisation

• Aggregators: generic, (sub-) disciplinary

Knowledge extraction:• Mining (data, text, structures)

• Modelling (economic, climate, mathematical, biological…)

• Analysis (statistical, lexical, gene….)

Adding value: eBank linking data to

publications

                                                             

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New forms of publication: integration of data and journals

Linking research to learning - embedding eBank aggregator service in a science portal for student learners

• MChem course • Assess role in

Undergraduate Chemical Informatics courses

• Pedagogic evaluation• Report to be published.

Nature 23 March 2006 OTMI: Open Text Mining Interface

NaCTeMhttp://www.nactem.ac.uk/

Emerging tools: TerMine, GENIA, Cafetiere

Avian flu outbreaks mashup - Nature January 2006

Data from FAO, WHO…

+Google Earth

                                                             

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Thank you.

UKOLN receives core funding from the Joint Information Systems Committee (JISC) and the Museums, Libraries & Archives Council (MLA)

and is based at the University of Bath, UK.