Developing a vocabulary and ontology for modeling insect natural history data: example data, use cases, and competency questions.
biodiversity informatics
data modeling
insects
natural history
ontology
Journal
Biodiversity data journal
ISSN: 1314-2828
Titre abrégé: Biodivers Data J
Pays: Bulgaria
ID NLM: 101619899
Informations de publication
Date de publication:
2019
2019
Historique:
received:
24
01
2019
accepted:
28
02
2019
entrez:
29
3
2019
pubmed:
29
3
2019
medline:
29
3
2019
Statut:
epublish
Résumé
Insects are possibly the most taxonomically and ecologically diverse class of multicellular organisms on Earth. Consequently, they provide nearly unlimited opportunities to develop and test ecological and evolutionary hypotheses. Currently, however, large-scale studies of insect ecology, behavior, and trait evolution are impeded by the difficulty in obtaining and analyzing data derived from natural history observations of insects. These data are typically highly heterogeneous and widely scattered among many sources, which makes developing robust information systems to aggregate and disseminate them a significant challenge. As a step towards this goal, we report initial results of a new effort to develop a standardized vocabulary and ontology for insect natural history data. In particular, we describe a new database of representative insect natural history data derived from multiple sources (but focused on data from specimens in biological collections), an analysis of the abstract conceptual areas required for a comprehensive ontology of insect natural history data, and a database of use cases and competency questions to guide the development of data systems for insect natural history data. We also discuss data modeling and technology-related challenges that must be overcome to implement robust integration of insect natural history data.
Identifiants
pubmed: 30918448
doi: 10.3897/BDJ.7.e33303
pii: 33303
pmc: PMC6426826
doi:
Types de publication
Journal Article
Langues
eng
Pagination
e33303Références
Zookeys. 2016 Jan 07;(550):207-23
pubmed: 26877660
Nucleic Acids Res. 2004 Jan 1;32(Database issue):D258-61
pubmed: 14681407
Nat Biotechnol. 2007 Nov;25(11):1251-5
pubmed: 17989687
Biodivers Data J. 2016 May 25;(4):e8080
pubmed: 27346955
BMC Ecol. 2013 Apr 15;13:16
pubmed: 23587026
Int Rev Neurobiol. 2012;103:69-87
pubmed: 23195121
PLoS One. 2016 Jan 13;11(1):e0146894
pubmed: 26760296
J Biomed Semantics. 2013 Dec 11;4(1):43
pubmed: 24330602
PLoS One. 2014 Mar 03;9(3):e89606
pubmed: 24595056
Zookeys. 2016 Jan 07;(550):261-81
pubmed: 26877664
J Biomed Semantics. 2016 Sep 23;7(1):57
pubmed: 27664130
Nat Genet. 2000 May;25(1):25-9
pubmed: 10802651
Proc Int World Wide Web Conf. 2014 Apr 11;2014:759-770
pubmed: 25750938
Cladistics. 2018 Jun;34(3):336-357
pubmed: 34645079
Genome Biol. 2012 Jan 31;13(1):R5
pubmed: 22293552
J Biomed Semantics. 2014 Aug 11;5:34
pubmed: 25140222
PLoS One. 2012;7(1):e29715
pubmed: 22238640
Genome Biol. 2005;6(5):R46
pubmed: 15892874
Am Nat. 2015 Dec;186(6):777-91
pubmed: 26655984