BioTop Ontology | Agrisemantics Map of Data Standards

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A top-domain ontology that provides definitions for the foundational entities of biomedicine as a basic vocabulary to unambiguously describe facts in this domain.

Form

Core information

URL(s):

http://biotopontology.github.io/

Type of standard:

Ontology

Describes / models / annotates:

[Other / various types]

Additional information

Acronym:

Other contributor(s):

Stefan Schulz

Contact email:

stefan.schulz@medunigraz.at

Technical information

Format of the data standard:

CSV, OWL/XML, RDF/XML

Namespace:

http://purl.org/biotop/biotop.owl

Relations

Aligned / mapped to (link to vocabulary in the map):

Experimental Factor Ontology, Environment Ontology, Cell Ontology, GENO Ontology, National Center for Biotechnology Information (NCBI) Organismal Classification, OntoBiotope, Semanticscience Integrated Ontology, Plant Trait Ontology, Semantic Types Ontology, Biorefinery

VEST / AgroPortal integration

Original source:

AgroPortal

Agroportal URI:

http://data.agroportal.lirmm.fr/ontologies/BT

Agroportal Web page:

http://agroportal.lirmm.fr/ontologies/BT

Assessment

An overview of criteria used for the assessment can be found here.

Total score:

1.93

assessment tabs

Fitness / adoption

Complete:

Fairly complete but needs complementary vocabularies

Authoritative:

Not clear - N/A

Largely compatible:

Yes

Known:

Yes, moderately

Used in software:

Yes, in a few tools

Used in datasets:

Not clear - N/A

Discoverable:

Yes

Regulatory:

Not clear - N/A

Endorsed:

Yes, moderately

Long-term, sustainable:

Not clear - N/A

Participatory, collaborative:

Not clear - N/A

Maintained:

Not clear - N/A

Scores

Avg fitness:

2.33

Avg adoption:

1.67

Usability / openness

Available on the web:

Yes

Versatile:

Yes, 2-3 similar formats

Served by APIs:

Yes, to get web- or user- friendly results

Yes, to lookup terms / concepts using several parameters

Yes, to automatically annotate text or data

Yes, to perform cross-walks between vocabularies

Manageable:

Documented:

Yes

Supported:

Testable:

Machine-readable:

Yes

Meaningful:

Yes

Annotated:

Referenceable:

Yes

Linked:

Yes

Clearly licensed:

Openly licensed:

Scores

Avg usability:

2.00

Avg openness:

1.71

Notes on assessment:

First technical assessment (usability / openness) made by: ODI.

URI: https://vest.agrisemantics.org/node/17616

RDF

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