Susanna-Assunta Sansone, PhD. Metadata WG3 chair.

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1 Susanna-Assunta Sansone, PhD Metadata WG3 chair

2 WG3 Metadata v v Full description: goals, synergies, phases, members & files Joint effort with BD2K Center for Expanded Data Annotation and Retrieval (CEDAR) Synergies with BD2K cross-centers Metadata WG (cochaired by M Musen/CEDAR, G Alter/bioCADDIE) and ELIXIR activities Dependency and synergies with other biocaddie activities: Use cases workshop s output WG4 Use Cases and Test Benckmarks Core Development Team Supported by the NIH grant 1U24 AI to the University of California, San Diego

3 WG3 Metadata - Goals v Define a set of metadata specifications that support intended capability of the Data Discovery Index prototype - being designed by the biocaddie Core Development Team - as outlined in the White Paper v Core metadata, designed to be future-proofed for progressive extensions (phase 1: May-July 2015) v Domain specific metadata for more specialized data types (phase 2) v Use cases and the competency questions will be used throughout the process to define the appropriate boundaries and level of granularity: which queries will be answered in full, which only partially, and which are out of scope Supported by the NIH grant 1U24 AI to the University of California, San Diego

4 WG3 Metadata work to date ① Standard Operating Procedure (SOP) ② Selected Competency Questions ③ Metadata Mapping ④ Core Metadata Elements Done by: with contributions, comments from several WG 3 members and colleagues, in particular: Joan Starr, George Alter, Ian Fore, Kevin Read, Stian SoylandReyes, Muhammad Amith, Michel Dumontier Supported by the NIH grant 1U24 AI to the University of California, San Diego

5 WG3 Metadata SOP 1 Standard Operating Procedure (SOP) document: contains lists of material reviewed data discovery initiatives and metadata initiatives existing meta-models for representing metadata elements outlines the approach used to identify metadata descriptors Via use cases and competency questions (top-down approach) Mapping generic and life science-specific metadata schemas (bottom-up approach) Ø Listed in the BioSharing collection for biocaddie The results of both approaches has been compared and converged on the core set of metadata Supported by the NIH grant 1U24 AI to the University of California, San Diego

6 WG3 Metadata Use Cases 2 Selected Competency Questions: representative set from use cases workshop, white paper, submitted by the community and from Phil Bourne questions have been abstracted and key metadata elements have been highlighted and color-coded and categorized as the set of core and extended metadata elements are defined, it will become clearer which questions the Data Discovery Index will not be able to answers if full and which only in part. Supported by the NIH grant 1U24 AI to the University of California, San Diego

7 WG3 Metadata Mapping 3 Metadata Mapping: both generic and (progressively more) life science-specific metadata schemas are being mapped to identify common metadata elements if available, formal representations such XML schema document (XSD) and semantic model (RDF/OWL representations) will be used as input material to the mapping process o provenance information each metadata schema/model is described and made available in the BioSharing collection, including: version; source of metadata elements (e.g. XSD), the URL where the model or schema has been sourced; documentation, including URL where the documentation is located

8 WG3 Metadata Core list 4 Core Metadata Elements: the result of the combined approaches, as outlined documents 1-3, is delivering a set of core metadata elements and progressively these will be extended to domain specific ones we aim to have maximum coverage of use cases with minimal number of data elements, but we do foreseen that not all questions can be answered in full

9 Use case Entity Extraction 2 From the Selected Competency Questions file:

10 Use case Entity Extraction 2 From the Selected Competency Questions file:

11 Entity Declaration ④ From the Core Metadata Elements file:

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22 What next v v v Provide feedback on the core metadata elements work: Use the Core Metadata Elements google spreadsheet Provide advise as we move towards implementation on: a conceptual model to be used to formally represent the metadata elements, both core and extensions Next call in August v But feedback encouraged via and adding comments to the google documents Supported by the NIH grant 1U24 AI to the University of California, San Diego