Difference between revisions of "The cROP (Common Reference Ontologies for Plants) Initiative"
From Plant Ontology Wiki
Jump to navigationJump to searchm (Created page with 'First proposed set of ontologies to be developed within the cROP Initiative # PO*: [http://www.plantontology.org Plant Ontology] # GO: [http://www.geneontology.org Gene Ontology…') |
m |
||
| (21 intermediate revisions by the same user not shown) | |||
| Line 1: | Line 1: | ||
| − | + | The vision of the cROP initiative is to develop a reference set of ontologies for all plants, by analogy with, and in collaboration with, the [http://obofoundry.org OBO] (Open Biological and Biomedical Ontologies) Foundry. | |
| + | |||
| + | For details see [http://www.planteome.org/ Planteome] website | ||
| + | |||
| + | The first proposed set of ontologies to be developed within the cROP Initiative is as follows: | ||
# PO*: [http://www.plantontology.org Plant Ontology] | # PO*: [http://www.plantontology.org Plant Ontology] | ||
# GO: [http://www.geneontology.org Gene Ontology] | # GO: [http://www.geneontology.org Gene Ontology] | ||
# PRO: [http://pir.georgetown.edu/pro/pro.shtml Protein Ontology] | # PRO: [http://pir.georgetown.edu/pro/pro.shtml Protein Ontology] | ||
| − | # TO*: | + | # TO*: [http://palea.cgrb.oregonstate.edu/trait_ontology/cgi-bin/trait_amigo/go.cgi Plant Trait Ontology] |
# EO*: Environment Ontology (plant treatments) [http://www.gramene.org/db/ontology/search?id=EO:0007359 browse at Gramene] | # EO*: Environment Ontology (plant treatments) [http://www.gramene.org/db/ontology/search?id=EO:0007359 browse at Gramene] | ||
# ENVO: [http://www.obofoundry.org/cgi-bin/detail.cgi?id=envo Ontology of environmental features and habitats] | # ENVO: [http://www.obofoundry.org/cgi-bin/detail.cgi?id=envo Ontology of environmental features and habitats] | ||
# PATO: [http://www.obofoundry.org/cgi-bin/detail.cgi?id=quality Phenotype Quality Ontology] | # PATO: [http://www.obofoundry.org/cgi-bin/detail.cgi?id=quality Phenotype Quality Ontology] | ||
| − | # Taxonomy | + | # Taxonomy: [http://www.ars-grin.gov/cgi-bin/npgs/html/index.pl USDA-GRIN] / [http://www.obofoundry.org/cgi-bin/detail.cgi?id=ncbi_taxonomy NCBI] / New? |
| − | # GAZ: [http://bioportal.bioontology.org/ontologies/1397 Gazetteer (geographical locations) | + | # GAZ: [http://bioportal.bioontology.org/ontologies/1397 An Ontologically-Informed Gazetteer] (geographical locations) |
| − | # Plant IDO*: Plant Infectious Disease Ontology [http://kr-med.org/icbofois2012/proceedings/ICBO2012/ICBO2012PapersSingleFiles/ICBO-2012-session1-paper01-walls.pdf | + | # Plant IDO*: Plant Infectious Disease Ontology [http://kr-med.org/icbofois2012/proceedings/ICBO2012/ICBO2012PapersSingleFiles/ICBO-2012-session1-paper01-walls.pdf] |
# Plant Diseases*: [http://wiki.plantontology.org/index.php/Plant_Disease_Ontology List of plant diseases] | # Plant Diseases*: [http://wiki.plantontology.org/index.php/Plant_Disease_Ontology List of plant diseases] | ||
# CHEBI: [http://www.ebi.ac.uk/chebi/ dictionary of molecular entities] | # CHEBI: [http://www.ebi.ac.uk/chebi/ dictionary of molecular entities] | ||
| − | # PCO: [http://code.google.com/p/popcomm-ontology/ | + | # PCO: [http://code.google.com/p/popcomm-ontology/ Population and Community ontology] |
| + | |||
| + | For ontologies labeled *, the Planteome group may adopt their development. | ||
| − | : | + | [[image:cROP.jpg | 600px ]] |
Latest revision as of 21:49, 21 October 2015
The vision of the cROP initiative is to develop a reference set of ontologies for all plants, by analogy with, and in collaboration with, the OBO (Open Biological and Biomedical Ontologies) Foundry.
For details see Planteome website
The first proposed set of ontologies to be developed within the cROP Initiative is as follows:
- PO*: Plant Ontology
- GO: Gene Ontology
- PRO: Protein Ontology
- TO*: Plant Trait Ontology
- EO*: Environment Ontology (plant treatments) browse at Gramene
- ENVO: Ontology of environmental features and habitats
- PATO: Phenotype Quality Ontology
- Taxonomy: USDA-GRIN / NCBI / New?
- GAZ: An Ontologically-Informed Gazetteer (geographical locations)
- Plant IDO*: Plant Infectious Disease Ontology [1]
- Plant Diseases*: List of plant diseases
- CHEBI: dictionary of molecular entities
- PCO: Population and Community ontology
For ontologies labeled *, the Planteome group may adopt their development.
