Difference between revisions of "Plant Pheontype Pilot Project 2015"
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− | Association data developed from the Plant Phenotype Pilot Project paper published in Feb 2015: http://www.plantmethods.com/content/11/1/10/abstract | + | Association data developed from the Plant Phenotype Pilot Project paper published in Feb 2015: [http://www.plantmethods.com/content/11/1/10/abstract "An ontology approach to comparative phenomics in plants"] |
* Six plant species: Rice, Maize, Arabidopsis, soybean, Medicago, tomato | * Six plant species: Rice, Maize, Arabidopsis, soybean, Medicago, tomato | ||
+ | See: [[Rice_IMP,_Gramene_Genes]] | ||
− | + | EQ files for this dataset can be found on the [http://mirrors.iplantcollaborative.org/browse/iplant/home/shared/plant_phenotype_ontology_data/2015_Oellrich_Walls_plant_phenotype_ontology_data/data iPlant data store] | |
+ | |||
+ | From Oellrich et al.: | ||
+ | *''' The number of EQ statements, genes, genotypes, and phenotypes they were associated with, for six plant species''' | ||
+ | {| "class = "wikitable" | ||
+ | |- | ||
+ | ! style="background:#d0e5f5" |Species | ||
+ | ! style="background:#d0e5f5" |#EQs | ||
+ | (phenes) | ||
+ | ! style="background:#d0e5f5" |#unique EQs - | ||
+ | all genotypes | ||
+ | ! style="background:#d0e5f5" |#genes | ||
+ | ! style="background:#d0e5f5" |#genotypes | ||
+ | ! style="background:#d0e5f5" |#phenotypes | ||
+ | |- | ||
+ | | ''Arabidopsis thaliana'' | ||
+ | | 5172 | ||
+ | | 1260 | ||
+ | | 2393 | ||
+ | | 2393* | ||
+ | | 1385 | ||
+ | |- | ||
+ | | ''Zea mays ssp mays'' | ||
+ | | 373 | ||
+ | | 180 | ||
+ | | 114 | ||
+ | | 169 | ||
+ | | 117 | ||
+ | |- | ||
+ | | ''Oryza sativa L.'' | ||
+ | | 340 | ||
+ | | 271 | ||
+ | | 92 | ||
+ | | 95 | ||
+ | | 86 | ||
+ | |- | ||
+ | | ''Solanum lycopersicum'' | ||
+ | | 269 | ||
+ | | 174 | ||
+ | | 72 | ||
+ | | 128 | ||
+ | | 90 | ||
+ | |- | ||
+ | | ''Medicago truncatula'' | ||
+ | | 149 | ||
+ | | 99 | ||
+ | | 40 | ||
+ | | 45 | ||
+ | | 40 | ||
+ | |- | ||
+ | | ''Glycene max'' | ||
+ | | 61 | ||
+ | | 39 | ||
+ | | 30 | ||
+ | | 30* | ||
+ | | 24 | ||
+ | |- | ||
+ | | Total | ||
+ | | 6364 | ||
+ | | 2023 | ||
+ | | 2741 | ||
+ | | 2866 | ||
+ | | 1742 | ||
+ | |} | ||
+ | |||
+ | '#Genotypes equals # genes because no information on alleles was available for these species. | ||
+ | |||
+ | |||
+ | |||
+ | Oellrich et al. Plant Methods 2015 11:10 doi:10.1186/s13007-015-0053-y | ||
[[Category:Annotations]] | [[Category:Annotations]] |
Latest revision as of 12:31, 2 October 2015
Association data developed from the Plant Phenotype Pilot Project paper published in Feb 2015: "An ontology approach to comparative phenomics in plants"
- Six plant species: Rice, Maize, Arabidopsis, soybean, Medicago, tomato
EQ files for this dataset can be found on the iPlant data store
From Oellrich et al.:
- The number of EQ statements, genes, genotypes, and phenotypes they were associated with, for six plant species
Species | #EQs
(phenes) |
#unique EQs -
all genotypes |
#genes | #genotypes | #phenotypes |
---|---|---|---|---|---|
Arabidopsis thaliana | 5172 | 1260 | 2393 | 2393* | 1385 |
Zea mays ssp mays | 373 | 180 | 114 | 169 | 117 |
Oryza sativa L. | 340 | 271 | 92 | 95 | 86 |
Solanum lycopersicum | 269 | 174 | 72 | 128 | 90 |
Medicago truncatula | 149 | 99 | 40 | 45 | 40 |
Glycene max | 61 | 39 | 30 | 30* | 24 |
Total | 6364 | 2023 | 2741 | 2866 | 1742 |
'#Genotypes equals # genes because no information on alleles was available for these species.
Oellrich et al. Plant Methods 2015 11:10 doi:10.1186/s13007-015-0053-y