![Page 1: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/1.jpg)
Complex Data Modeling for Simpler Data Access
TDWG 2014, Jönköping, Sweden
Ramona Walls
Robert Guralnick
![Page 2: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/2.jpg)
A Canonical Example of “Opportunistic Collecting” typical in biocollections
![Page 3: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/3.jpg)
plot
sub-plot
transect
(within plot)
individual
(within plot)individual
(within sub-plot)
![Page 4: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/4.jpg)
![Page 5: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/5.jpg)
transect
depth
* *
*
*
*
*sample collection point
water sample at
depth X
aliquot
*
metagenome
![Page 6: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/6.jpg)
DwC
Bag ofterms
![Page 7: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/7.jpg)
http://vegbank.org/vegbank/general/faq.html#datamodel
![Page 8: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/8.jpg)
http://vegbank.org/vegbank/general/faq.html#datamodel
?
![Page 9: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/9.jpg)
Madin et al. 2007 Ecol. Informatics doi: 10.1016/j.ecoinf.2007.05.004
OBO-E:
O&M:
![Page 10: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/10.jpg)
Most biology requires work at the intersection of disciplines
MUSEUM COLLECTIONS
ECOLOGYGENOMICS
![Page 11: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/11.jpg)
Material entities, information entities, and processes in the Basic Formal Ontology
![Page 12: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/12.jpg)
observations versus specimens
![Page 13: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/13.jpg)
Specimen data from a Darwin Core Archive: VertNet
![Page 14: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/14.jpg)
specimencollection
process
sampling process
material sampling process
sampling process logical definition:assay and (achieves_planned_objective some ‘biological feature identification objective’)
has_specified_input some‘sampling feature’has_specified_output some‘sample data item’
specimen collection process logical definition:'planned process' and(achieves_planned_objectivesome 'specimen collection objective')
has_specified_input some‘material entity’has_specified_output some‘specimen’
material sampling process logical definition:'planned process' and(achieves_planned_objectivesome ’material sampling objective')
has_specified_input some‘material sampling feature’has_specified_output some‘material sample’
![Page 15: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/15.jpg)
ROB
BCO Taxonomic Inventory Process Class and Sub-classes of different kinds of processes
![Page 16: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/16.jpg)
![Page 17: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/17.jpg)
![Page 18: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/18.jpg)
![Page 19: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/19.jpg)
![Page 20: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/20.jpg)
Conclusions
• BCO splits the middle ground between the high level OBO-E world view and the flat way of representing a process that has a single output to allow us to represent all kinds of different content.
• BCO can serve as a sandbox to test out new models and terms for describing sampling processes and data, to inform standards like DwC.
![Page 21: Complex Data Modeling for Simpler Data Access](https://reader033.vdocument.in/reader033/viewer/2022060204/559f254f1a28ab48578b46db/html5/thumbnails/21.jpg)
Acknowledgments
• Dozens of participants at BCO workshops and hackathons over the past two years
• NSF-EAGER: An Interoperable Information Infrastructure for Biodiversity Research (I3BR)
• NSF: Research Coordination Network for GSC (RCN4GSC)
• VertNet and University of Kansas Biodiversity Institute