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Integration and linking between Biodiversity and Life science data - towards a shared global knowledge graph

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26 Jan 2021

Integration and linking between Biodiversity and Life science data - towards a shared global knowledge graph

Group leading the application: 
Biodiversity Data Integration IG
Life Science Data Infrastructures IG
Biodiversity Data Integration IG
Life Science Data Infrastructures IG
Meeting agenda: 

Collaborative session notes: https://docs.google.com/document/d/1nX-lhvuLuQc18QfS9-LCLWt1sV3mJESCv4Sv...

Session chairs: Wouter Addink, Rob Hooft

Assistance with session moderation and notetaking: Libby Ellwood

Presenters: 

  • Prof. Dr. Lyubomir Penev. Managing Director of Pensoft Publishers and Project coordinator for the BICIKL project.

  • Dr. Ilene Mizrachi. Ilene leads a number of products including GenBank  and BioSample. She has been involved with organism Barcoding projects, standards committees, and biodiversity meetings.

  • Dr. Johan Gustafsson. Bioinformatics Engagement Officer from BioPlatforms Australia/ BioCommons.

Agenda:

  • Welcome and introduction to the session (5 min) - Rob Hooft & Wouter Addink

  • Introduction to the BICIKL project (10 min) - Prof. Dr. Lyobomir Penev

  • Barcoding and biodiversity sequence data in GenBank (10 min) Dr. Ilene Mizrachi

  • BioPlatforms Australia (10 min) Presenter TBD

  • Discussion (50 min) - all  

  • Wrap up, next steps (5 min) - Rob Hooft, Wouter Addink

Possible items for the discussion:

  • Discussion on the “concept of linking” in a wider and narrower sense, especially of the “true linking of biodiversity data”, that is linking between the PIDs of FAIR data items.

  • What are the main issues in integrating biodiversity and life science data?

    • where and how should links be stored and managed, e.g. at each participating RI or at a third party place?

    • how should links be annotated/corrected?

    • are there RDA outputs already that can solve some of these issues?

  • Could nanopublications play a role in certification, permanent record and possibly annotation of newly discovered links? 

  • Which regional/continental developments and strategies are there towards integration and linking between Biodiversity and Life science data?

  • Can these engage with the BICIKL developments? How?

Meeting objectives: 

The joint session aims to discuss the life science and biodiversity data integration and linking objectives of the recently EU-funded BICIKL project (Biodiversity Community Integrated Knowledge Library) in a global, intercontinental perspective. All research infrastructures involved in the project have global coverage, or at least a global audience and user base. See for a short introduction to BiCIKL: http://bit.ly/bicikl-intro.

BICIKL will initiate and build a new community of key research infrastructures in the biodiversity and life science domain with the aim to to link and track usage of data along the line: specimens → sequences → species → analytics → publications → biodiversity knowledge graph → re-use. Linking between different biodiversity classes will be managed by the participating RIs engaged with the different data classes, and literature with sub-article level biodiversity data will be the crossing point in the project for these data classes.

Regions in the world are developing their own tailored strategies to achieve integration between life science and biodiversity data. Example global initiatives of relevance are the UN's One Health initiative (http://www.fao.org/one-health/en/) and Earth System Science Partnership and partners therein (https://www.essp.org/). Identifying integration strategies in different parts of the world and achieving synergy between these developments is key to build a shared global knowledge graph. The session will discuss the BiCIKL approach and how intercontinental engagement can be achieved.

Target Audience: 

Members of both the IGs and members of the life science data community and biodiversity data community in general.

Short Group Status: 

Group status (both groups): Recognised & Endorsed. BDI IG had a new, updated charter endorsed in 2020, a joint session for P17 is one of the planned milestones included in that charter.

Brief introduction describing the activities and scope of the group(s): 

ELIXIR Bridging Force IG aims to turn the IG into a inter-continental community of life science data infrastructures, including Australia, USA, Africa and ELIXIR/Europe.

The Biodiversity Data Integration IG aims to create synergies among infrastructure developments around biodiversity data, and to connect these in the wider inter-disciplinary research infrastructure landscape.

Type of Meeting: 
Working meeting
Group chair serving as contact person (responsible for the agreement with the corresponding groups): 
Wouter Addink
Additional links to informative material: 
Avoid conflict with the following group (1): 
Physical Samples and Collections in the Research Data Ecosystem IG
Avoid conflict with the following group (2): 
Disciplinary Collaboration Framework IG
Meeting presenters: 
Prof. Dr. Lyubomir Penev, Dr. Ilene Mizrachi, Dr Johan Gustafsson
Contact for group (email): 
wouter.addink@naturalis.nl
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