[GloBI] Ontology of Biotic Interactions?

[Jorrit Poelen]

Hey John -

Like Robert (hi Robert!) mentioned, GloBI is also using the OBO 
Relations Ontology for defining biotic and abiotic interaction types, 
just like many other projects.

I've been attempting to collect my thoughts on data format and models at 
https://github.com/jhpoelen/globis-b-interactions/blob/master/text/on-species-interaction-data-models-and-formats.md 
. In my experience, an effective way to figure out how to capture/share 
your data is to use what you have today (as is!) and try to integrate a 
subset of it with other projects (like GloBI, GBIF).

Your projects sounds very similar to other projects that have already 
been integrated into GloBI - a mix of specimen and literature data with 
their own way of describing interaction terms.

Do you have some samples that you can share so that I can get a sense of 
what you currently have?

thx,

-jorrit

https://globalbioticinteractions.org

On 11/19/18 6:21 PM, Bates, Robert P wrote:
>
> Hi John,
>
> We’ve been working with subsets of the OBO Relation Ontology (which if 
> I’m not mistaken is also what GloBI uses) to provide the concepts for 
> interaction relationships in our VERA modeling system:
>
> http://www.obofoundry.org/ontology/ro.html
>
> -R
>
> *Robert Bates*
>
> Research Scientist
>
> Design & Intelligence Lab
>
> *Georgia Institute of Technology*
>
> Technology Square Research Building, 85 5th Street NW, Atlanta, GA 30308
>
> e: rbates8 at gatech.edu <mailto:rbates8 at gatech.edu>
>
> m: 770.713.8531
>
> *From: *GloBI <globi-bounces at lists.gbif.org> on behalf of John Oswald 
> <j-oswald at tamu.edu>
> *Date: *Monday, November 19, 2018 at 9:18 PM
> *To: *"globi at lists.gbif.org" <globi at lists.gbif.org>
> *Subject: *[GloBI] Ontology of Biotic Interactions?
>
> I’m growing and extending interaction/association data in my research 
> database on the species of the superorder Neuropterida (Insecta: 
> orders Neuroptera, Megaloptera, and Raphidioptera) of the world. The 
> data is primarily drawn from the published literature; some also from 
> specimen labels. I’m interested in standardizing the terminology that 
> I use to describe interactions and associations. I’m interested in 
> taxon to taxon interactions (e.g., species X eats species Y; species X 
> is phoretic on species Y), taxon to inanimate object 
> interactions/associations (e.g., species X oviposits on substrate Y 
> [say, rocks]), and taxon to concept associations (e.g., species X 
> exhibits behavior Y). Can anyone recommend any good lists of 
> standardized terms (with definitions) for this sort of thing? Are 
> there any good, well developed, ontologies for general taxon-taxon 
> and/or taxon-inanimate interactions? I have a list of 500+ 
> “association kinds” (without well-standardized definitions) that I 
> have scraped together over the years. I’d like to plug these into (or 
> convert them into) something more standardized if something more 
> standard exists. Thanks for any suggestions on where I might go next 
> on this.
>
> ---oo0oo---
>
> John D. Oswald
>
> Professor of Entomology
>
> Curator, Texas A&M University Insect Collection
>
> Department of Entomology
>
> Texas A&M University
>
> College Station, TX  77843-2475
>
> E-mail: j-oswald at tamu.edu <mailto:j-oswald at tamu.edu>
>
> Phone: 1-979-862-3507
>
> Lacewing Digital Library: http://lacewing.tamu.edu/
>
> Bibliography of the Neuropterida: http://lacewing.tamu.edu/Biblio/Main
>
> Neuropterida Species of the World: 
> http://lacewing.tamu.edu/SpeciesCatalog/Main
>
>
> _______________________________________________
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> GloBI at lists.gbif.org
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