Semantics of Biodiversity Workshop May 16 - 18, 2012
University of Kansas Biodiversity Institute  -- Lawrence, Kansas

Group Photo

Sponsored by RCN4GSC (NSF), Morphbank (NSF), Kansas University’s Biodiversity Institute, and BiSciCol (NSF), in collaboration with the National Center for Biomedical Ontology, with content-hosting by Biocode Commons.

The Speaker: Barry Smith is a prominent contributor to ontology research in biomedical and other domains. He is one of the principal scientists of the NIH National Center for Biomedical Ontology, a Scientific Advisor to the Gene Ontology Consortium, a PI on the Protein Ontology and Infectious Disease Ontology projects, and one of the founders of the Open Biomedical Ontologies (OBO) Foundry initiative.

Topics: The Semantics of Biodiversity Workshop will explore terms used to describe biological collection objects and their derivatives using the Darwin Core standard as a starting point.  The goal is to enable linking data across domains and to produce a deeper understanding of our planet’s biodiversity. For example, by linking information about the ecosystem (both gross and micro-habitat) and the geospatial environment to tissue samples and derived sequences, we can better understand population dynamics, ecosystem gene expression, and the significance of biodiversity in different environments. Before the workshop, users provided a list of challenging issues and terms.

The Full Agenda is available online.

Day 1: Wednesday, May 16, 2012

Video: AM 1, Barry Smith

AM 2, Barry Smith

PM 1, Barry Smith

PM 2, Barry Smith

PM 3, Barry Smith

Day 2: Thursday, May 17, 2012

Video: Darwin Core Summary, John Wieczorek, UC Berkeley

Germplasm Extension, Dag Endresen, Global Biodiversity Information Facility

Darwin-SW, Joel Sachs, TDWG RDF Interest Group

The Environment Ontology, Norman Morrison, University of Manchester, UK

Darwin Core and Basic Formal Ontology (putting it all together + wrapup) , Barry Smith

Participant discussion and breakout group organization for Friday, Bob Robbins, University of California, San Diego

Day 3: Breakout Groups, Friday May 18, 2012

Individual Breakouts document (with links to DwC/BFO, Governance, relations, and Testbed groups)

Post-Workshop References

DwC Ontology in BioPortal - The beginnings of this Ontology was sketched during the last day of the workshop and subsequently added to BioPortal.

Darwin Core Terms Reference - An up to date list of darwin core terms.