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UKOLN is supported by: Data, information and knowledge repositories: developing infrastructure to support the e-Research landscape. Dr Liz Lyon, Director.

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Presentation on theme: "UKOLN is supported by: Data, information and knowledge repositories: developing infrastructure to support the e-Research landscape. Dr Liz Lyon, Director."— Presentation transcript:

1 UKOLN is supported by: Data, information and knowledge repositories: developing infrastructure to support the e-Research landscape. Dr Liz Lyon, Director UKOLN, University of Bath, UK euroCRIS Strategic Seminar, Brussels, September 2005. www.bath.ac.uk a centre of expertise in digital information management www.ukoln.ac.uk

2 euroCRIS Seminar, Brussels, September 20052 Overview 1.e-Research: a changing landscape 2.Developing infrastructure: repository services & adding value Aggregation and linking: eBank UK Integration and workflow Enabling knowledge extraction & post- processing 3.Looking to the longer term: digital curation and preservation

3 1. e-Research: a changing landscape

4 euroCRIS Seminar, Brussels, September 20054 A medieval scriptorium…..

5 euroCRIS Seminar, Brussels, September 20055 Data Overload! How do we disseminate? EPSRC National Crystallography Service eScience - the data deluge

6 euroCRIS Seminar, Brussels, September 20056 Learning & Teaching workflows Research & e-Science workflows Aggregator services: national, commercial Repositories : institutional, e-prints, subject, data, learning objects Institutional presentation services: portals, Learning Management Systems, u/g, p/g courses, modules Harvesting metadata Data creation / capture / gathering: laboratory experiments, Grids, fieldwork, surveys, media Resource discovery, linking, embedding Deposit / self- archiving Peer-reviewed publications: journals, conference proceedings Publication Validation Data analysis, transformation, mining, modelling Resource discovery, linking, embedding Deposit / self- archiving Learning object creation, re-use Searching, harvesting, embedding Quality assurance bodies Validation Presentation services: subject, media-specific, data, commercial portals Resource discovery, linking, embedding The scholarly knowledge cycle. Liz Lyon, Ariadne, July 2003. This work is licensed under a Creative Commons License Attribution-ShareAlike 2.0Creative Commons License © Liz Lyon (UKOLN, University of Bath), 2005

7 euroCRIS Seminar, Brussels, September 20057 Diversity of data collections Very large, relatively homogeneous: Large-scale Hadron Collider (LHC) outputs from CERN Smaller, heterogeneous and richer collections: World Data Centre for Solar-terrestrial Physics CCLRC Small-scale laboratory results: jumping robots project at the University of Bath Population survey data: UK Biobank Highly sensitive, personal data: patient care records

8 euroCRIS Seminar, Brussels, September 20058 Taxonomy of data collections Research collections: jumping robots Community collections: Flybase at Indiana (with UC Berkeley ) Reference collections: Protein Data Bank Source: NSF Long-Lived Digital Data Collections Draft report revised May 2005 Evolution……

9 euroCRIS Seminar, Brussels, September 20059 Evidence from recent reports Large scale data sharing in the life sciences Draft Report June 2005 (MRC, BBSRC, NERC, JISC, Wellcome) –Importance of standards and good quality metadata –Require a data management plan –Work needed on vocabularies & ontologies –Awareness of archiving & long term preservation Institutional repositories CNI/JISC/SURF Country update D-Lib Magazine September 2005 –Germany 103, UK 31, Sweden 25 –Policy: Germany YES, UK RCUK draft –National programmes: UK, Germany, Australia, Sweden, Netherlands YES –Services: indexing, search, harvesting

10 2. Developing infrastructure: repository services & adding value

11 euroCRIS Seminar, Brussels, September 200511 eBank UK Project JISC-funded September 2003, Phase 2 February 2005 UKOLN at the University of Bath (lead), University of Southampton, University of Manchester Exemplar: e-Science testbed Combechem –Grid-enabled combinatorial chemistry / crystallography –Development of an e-Lab using pervasive computing technology –National Crystallography Service Resource Discovery Network / PSIgate physical sciences portal Two key themes: –Open access to datasets –Linking research data to learning http://www.ukoln.ac.uk/projects/ebank-uk/

12 euroCRIS Seminar, Brussels, September 200512 Data Flow in eBank UK Submit Store/link Data files Metadata Present HTML Institutional repository eCrystals OAI-PMH Harvest (XML) Index and Search Present HTML eBank aggregator service Create Deposition Interface Local archive search interface Service Provider interfaces e.g. Subject Portal Deposit

13 euroCRIS Seminar, Brussels, September 200513 ebank_dc record (XML) Crystal structure (data holding) Crystal structure report (HTML) Dataset Institutional repository eBank UK aggregator service ePrint UK aggregator service Subject service Deposit Harvesting OAI-PMH ebank_dc Harvesting OAI-PMH oai_dc Searching, linking and embedding Dataset dc:identifier dcterms:references Linking dc:type=CrystalStructure and/or Collection Model input Andy Powell, UKOLN. PSIgate portal Eprint oai_dc record (XML) dcterms:isReferencedBy dc:type=Eprint and/or Text eBank data model Eprint jump-off page (HTML) dc:identifier Eprint manifestation (e.g. PDF) Linking

14 euroCRIS Seminar, Brussels, September 200514 CombeChem: An EPSRC pilot project X-Ray e-Lab Analysis Properties Properties e-Lab Simulation Video Diffractometer Grid Middleware Structures Database

15 euroCRIS Seminar, Brussels, September 200515 Crystallography workflow RAW DATADERIVED DATARESULTS DATA Initialisation: mount new sample set up data collection Collection: collect data Processing: process and correct images Solution: solve structures Refinement: refine structure CIF: produce CIF (Crystallographic Information File) Validation: chemical & crystallographic checks Report: generate Crystal Structure Report

16 euroCRIS Seminar, Brussels, September 200516

17 euroCRIS Seminar, Brussels, September 200517 A data repository entry

18 euroCRIS Seminar, Brussels, September 200518 Access to the underlying data ecrystals.chem.soton.ac.uk

19 euroCRIS Seminar, Brussels, September 200519 Harvesting: OAIster

20 euroCRIS Seminar, Brussels, September 200520 Aggregating: search & discover

21 euroCRIS Seminar, Brussels, September 200521 Linking data to publications

22 euroCRIS Seminar, Brussels, September 200522 eBank embedded in a science portal

23 euroCRIS Seminar, Brussels, September 200523 Ontologies for aggregating, linking & discovery Transform the list into an ontology Embed ontology into the deposition process Publish keywords in OAI Aggregators use keywords for linking with the broader literature Researchers use keyword ontology in search and discovery services

24 euroCRIS Seminar, Brussels, September 200524 Persistent identifiers for data citation eBank use cases: depositor, author, service provider, reader, publisher, ? Schemes: DOI, Handle, ARK, PURL Global identification: express as http URIs Added value services: CrossRef, resolution service, integration (Globus), look-up service, ? Degree of trust or persistence Future potential: political, ? Domain identifiers: International Chemical Identifier (InChI) codes

25 euroCRIS Seminar, Brussels, September 200525 Publication & citation of Primary Data project National Library for Science & Technology (TIB), University of Hanover, Germany STD-DOI Project http://www.std-doi.de DOI registry for datasets Data requirements: quality control, long-term curation, use DOI resolver Data publication agents: World Data Center Climate, GeoForschungsZentrum Potsdam Exemplar data citation: –Kamm, H; Machon, L; Donner, S (2004): Gas chromatography (KTB Field Lab), GFZ Potsdam. doi:10.1594/GFZ/ICDP/KTB/ktb-geoch-gaschr-p

26 euroCRIS Seminar, Brussels, September 200526 Integration into crystallographic publishing practices Publishers seal of approval

27 euroCRIS Seminar, Brussels, September 200527 Integration into chemistry research workflows R4L Repository for the Laboratory Project (JISC-funded) automated data capture from instrumentation, registration of results SMART TEA electronic Laboratory notebook Related sub-domains of chemistry: SPECTRa Project (JISC-funded) Research assessment (RAE) process?

28 euroCRIS Seminar, Brussels, September 200528 Integration into the curriculum and e-Learning workflows MChem course Assess role in Undergraduate Chemical Informatics courses Pedagogic evaluation Introducing school children to e-Research?

29 3. Looking to the longer term: digital curation & preservation

30 euroCRIS Seminar, Brussels, September 200530 For later use? In use now (and the future)? Repositories and digital curation Data preservationData curation StaticDynamic maintaining and adding value to a trusted body of digital information for current and future use

31 euroCRIS Seminar, Brussels, September 200531 Assuring long term access to the research record Trusted digital repositories –Audit Checklist for Certification Draft Report –Research Libraries Group, August 2005 –RLG-NARA Taskforce –Defined criteria under 4 categories Organisation Functions, processes & procedures Designated community & usability Technologies & technical infrastructure UK Digital Curation Centre http://www.dcc.ac.uk –1 st International DCC Conference Sep 29-30, Bath UK

32 Thank you. Questions?…..

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