UKOLN is supported by: eBank UK : linking research data, scholarly communications and learning. Dr Liz Lyon, UKOLN, University of Bath, UK JISC CNI Conference

UKOLN is supported by:

eBank UK : linking research data, scholarly communications and learning.

Dr Liz Lyon, UKOLN, University of Bath, UK

JISC CNI Conference

July 2004, Brighton.

www.bath.ac.uk

a centre of expertise in digital information management

www.ukoln.ac.uk

JISC CNI Conference 2004 2

Overview

• Setting the scene: e-Research• The scholarly knowledge cycle

– Data, information and workflows– Provenance

• eBank UK Project– The experience so far– Issues arising

• Challenges for the future

Setting the scene: e-Research


e-Research trends summary

• Increasingly data–intensive, quantitative• Implementing new science • Inter-disciplinary • New disciplines e.g. Astro-informatics• New skills requirements

– IT + statistics + domain

• Collaborative• Highly distributed resources

– Knowledge discovery / extraction

• Open access to data and information – OECD Declaration January 2004

• A changing landscape of scholarly communications

The scholarly knowledge cycle


Research & e-Science workflows

Aggregator services: national, commercial

Repositories : institutional, e-prints, subject, data, learning objects

Data curation: databases & databanks

Validation

Harvestingmetadata

Data creation / capture / gathering: laboratory experiments, Grids, fieldwork, surveys, media

Deposit / self-archiving

Peer-reviewed publications: journals, conference proceedings

Publication

Validation

Data analysis, transformation, mining, modelling

Searching , harvesting, embedding

Presentation services: subject, media-specific, data, commercial portals

Resource discovery, linking, embedding

Linking

The scholarly knowledge cycle.

Liz Lyon, eBankUK article. Ariadne, July 2003.






Validation

Harvestingmetadata




Publication

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Validation

Harvestingmetadata




Publication

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Linking


Learning & Teaching workflows



Institutional presentation services: portals, Learning Management Systems, u/g, p/g courses, modules

Harvestingmetadata



Validation



Learning object creation, re-use


Quality assurance bodies

Validation









Validation

Harvestingmetadata





Publication

Validation







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Linking




Aggregator services:

eBank UK




Validation

Harvestingmetadata





Publication

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Linking

The eBank UK Project


eBank UK project

• JISC-funded for 1 year from September 2003• UKOLN at the University of Bath (lead), University of

Southampton, University of Manchester• “Building the links between research data, scholarly

communication and learning”• e-Science testbed Combechem

– Grid-enabled combinatorial chemistry– Crystallography, laser and surface chemistry– Development of an e-Lab using pervasive computing technology– National Crystallography Service

• Resource Discovery Network PSIgate physical sciences portal• http://www.ukoln.ac.uk/projects/ebank-uk/


The project team

• UKOLN• Michael Day• Monica Duke• Rachel Heery• Liz Lyon• +• Andy Powell

• Southampton• Les Carr• Simon Coles• Jeremy Frey• Chris Gutteridge• Mike Hursthouse

• Manchester• John Blunden-Ellis

Comb-e-Chem Project

X-Raye-Lab

Analysis

Properties

Propertiese-Lab

SimulationVideo

Diff

ract

omet

er

Grid Middleware

StructuresDatabase


Crystallography workflow

• Initialisation: mount new sample on diffractometer & set up data collection

• Collection: collect data• Processing: process and correct images• Solution: solve structures• Refinement: refine structure• CIF: produce CIF (Crystallographic

Information File format)• Report: generate Crystal Structure Report



First steps: establishing common ground…

• Understand the data creation process • Terminology and definitions

– Data– Metadata– Datafile– Dataset– Data holding

• Different views– Digital library researchers, computer scientists, chemists– Generic vs specific– Modeller vs practitioner

• Aim for a common ontology• Modelling the domain• Creating a metadata schema


Progress update

• Version 2.0 eBank metadata schema• Enhanced ePrints.org software• Pilot institutional e-data repository for

harvesting (raw, derived, results data)• Exports records as ebank_dc and oai_dc• Validation of schema• Pilot eBank UK aggregator service• Develop search interface Version 1.0 • Testing with PSIgate physical sciences portal

– embedding eBank UK


Some metadata issues

• Using simple and qualified Dublin Core • Additional chemical information in schema for

harvesting e.g. empirical formula• Schema contains International Chemical

Identifier (InChI)• Links to all datasets associated with an

experiment• Links to individual datasets within an experiment• Links to eprints (and other published literature)

derived from the data• Using vocabularies specific to crystallography• Will substitute when standards emerge


ebank_dc record (XML)

Crystal structure (data holding)

Crystal structure report (HTML)

Dataset

Dataset

Institutional repository

Deposit

Dataset

dc:identifier

dcterms:references

Linking

dc:type=“CrystalStructure” and/or “Collection”

Model input Andy Powell, UKOLN.

Eprint oai_dc record (XML)

dcterms:isReferencedBy

dc:type=“Eprint” and/or ”Text”

Data flow in eBank





Dataset

Dataset


eBank UK aggregator service

ePrint UK aggregator service

Subject service

DepositHarvesting OAI-PMH

ebank_dc

Harvesting OAI-PMH oai_dc


Dataset

dc:identifier

dcterms:references

Linking






Data flow in eBank





Dataset

Dataset


eBank UK aggregator service

ePrint UK aggregator service

Subject service

DepositHarvesting OAI-PMH

ebank_dc



Searching, linking and embedding



Dataset

dc:identifier

dcterms:references

Linking



PSIgate portal




Data flow in eBank


Currently we are……

• Planning Consultation Workshop – August• Developing a demonstrator• Promoting Open Access and Open eData

Archives to international crystallographic organisations, publishers, learned societies

• e-Science All Hands Meeting, Nottingham September 2004.

• Phase 2 proposal funding sought for further 12 months

Challenges for the future


Phase 2 plan…….(1)

• Continue to progress generic data models and metadata schemas

• Validation against other schema– CLRC Scientific Metadata Model vs 1.0 2001 (under revision)

http://www-dienst.rl.ac.uk/library/2002/tr/dltr-2002001.pdf

• Complex digital objects• Investigate packaging options

– METS– MPEG 21 DIDL – ??

• Metadata enhancement - subject keyword additions to datasets based on knowledge of keywords in related publications


Phase 2…..(2)

• Investigate identifiers e.g. International Chemical Identifier (InChI code)– Access to scientific (climate) data using DOIs (German

National Library of Science & Technology)

• Explore context sensitive linking: find me– Datasets by this person– Journal articles by this person– Datasets related to this subject– Journal articles on this subject– Learning objects by this person– Learning objects on this subject


Phase 2…….(3)

• Workflow embedding– Expand to include SMART e-Lab metadata e.g.

sample preparation

• e-Learning embedding and pedagogic evaluation– MChem course – Chemical informatics course

• Expand into other physical sciences• Feasibility study in a related domain -

biosciences




Aggregator services: eBank UK




Validation

Harvestingmetadata





Publication

Validation







Validation



Linking


Potential longer term impact

1. Track data, information and workflows in e-research and scholarly communications – knowledge audit??

2. Validate the accuracy and authenticity of derived works – ideas audit??

3. Facilitate explicit referencing and acknowledgment of original contributors – intellectual integrity??

4. Raise standards associated with publication of research outputs – academic publishing rigour??

5. Implement open access to and dissemination of data and information – enhance the research process??

6. Give students links to original data underpinning published works – enhance the learning process??


Thank you.

Questions?…..

Documents

UKOLN is supported by: eBank UK : linking research data, scholarly communications and learning. Dr Liz Lyon, UKOLN, University of Bath, UK JISC CNI Conference