1 SageCite Building a data citation demonstrator for bionetwork models.

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Presentation transcript:

1 SageCite Building a data citation demonstrator for bionetwork models

2 Problem ? Opportunity…. Global coherent science requires multiple data contributors in a Federation / commons. How to incentivise data sharing? Data citation provides attribution and credit associated with publication…..

Requirements for citing bionetwork models Demonstrate a solution Testbed: GEO microarray data

Mapping data pipelines Lab visits and interviews Develop Use Cases Identify citation points

Data curation Statistical QC Genomic analysis Network construction Network analysis Data miningValidation Sage bionetwork modelling process Actual values in data sets are validated for quality to check for experimental artifacts Statistical QC Validated & curated data sets Curated data sets

Modelling process as workflows 6 Statistical QC Validated & curated data sets Curated data sets Shows steps in process Executable Reproducible Citation of results

DataCite sagecitedemorepository Data Produces Register Generate landing page for data DOIsDOIs Mint DataCite API Google API Resolve to landing page Taverna workflow The relationships between data via DataCite DOIs with tools are captured by the provenance (OPM) produced by Taverna Workflow metadata

Sharing and citation of workflow protocols 8

9 Benefits of citing bionetwork models? Keeping Research Data Safe (KRDS) Benefits Taxonomy DimensionType of benefit What?DirectIndirect When?Near-termLong-term Who?PrivatePublic Value Chain / Impact Analysis tool applied to SageCite research workflow ActivityChange and BenefitImpact Weighting (1 low- 5 high) From When? (year1-5+ etc) Who Benefits? (researcher, research group, institution, discipline, etc)

Patients Participate! Feasibility pilot study Stem cell research areas Centre for Regenerative Medicine, Univ. of Bath UK Medical charities involved Workshop 16 May London Develop Use Cases Deliver advocacy, guidance Report & Recommendations 10 Citizen-patients producing crowd-sourced lay summaries of UK PubMed Central papers Blog :

Questions? Monica Duke Liz Lyon Peter Li Carole Goble Max Wilkinson Tom Pollard Jon Izant Stephen Friend Phil Bourne Myles Axton Monica Duke Liz Lyon Lee-Ann Coleman Karen Walshe Allan Sudlow Simon Denegri Sophie Petit-Zeman Sara Ellis Stephen Friend Julian Chaudhuri 11