Difference between revisions of "Plant Pheontype Pilot Project 2015"

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See: [[Rice_IMP,_Gramene_Genes]]
 
See: [[Rice_IMP,_Gramene_Genes]]
  
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Link to GoogleSheets:
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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]
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* [https://docs.google.com/a/oregonstate.edu/spreadsheets/d/1rjAGo9WvQADfcHvYm2aWa0rBo3XNafyNh0wWc2mvkfA/edit?usp=sharing Arabidopsis_PPPP]
 
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* [https://docs.google.com/spreadsheets/d/1Gd1uWiNYGI16LQFXmDVXcyOoMrhXRGUE0AcsjrhotTc/edit?usp=sharing Rice_PPPP]
 
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* [https://docs.google.com/spreadsheets/d/1L2eqG10_SfAyDtYu6CYyxCbrPKYRadl0rUFzynvMuTI/edit?usp=sharing Maize_PPPP]
 
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* [https://docs.google.com/a/oregonstate.edu/spreadsheets/d/1NNAzKsMHBcOw18MWpaoujf5uPb_R-ul0FSXnlMH2uG4/edit?usp=sharing Medicago_PPPP]
 
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* [https://docs.google.com/a/oregonstate.edu/spreadsheets/d/1PsD_F9P7AaX1MPZfbLY_pTwImBjwdJhXOHbXc-YfHwE/edit?usp=sharing Soybean_PPPP]
 
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* [https://docs.google.com/a/oregonstate.edu/spreadsheets/d/1zkCdol5lLLfu4w6ms-tAxAWkfb0XvA1ku8EWNS-jW-c/edit?usp=sharing Tomato_PPPP]
 
  
  
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[file:Table2.png]
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From Oellrich et al.:
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*''' The number of EQ statements, genes, genotypes, and phenotypes they were associated with, for six plant species'''
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{| "class = "wikitable"
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|-
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! style="background:#d0e5f5" |Species
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! style="background:#d0e5f5" |#EQs
 +
(phenes)
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! style="background:#d0e5f5" |#unique EQs -
 +
all genotypes
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! style="background:#d0e5f5" |#genes
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! style="background:#d0e5f5" |#genotypes
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! style="background:#d0e5f5" |#phenotypes
 +
|-
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| ''Arabidopsis thaliana''
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| 5172
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| 1260
 +
| 2393
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| 2393*
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| 1385
 +
|-
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| ''Zea mays ssp mays''
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| 373
 +
| 180
 +
| 114
 +
| 169
 +
| 117
 +
|-
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| ''Oryza sativa L.''
 +
| 340
 +
| 271
 +
| 92
 +
| 95
 +
| 86
 +
|-
 +
| ''Solanum lycopersicum''
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| 269
 +
| 174
 +
| 72
 +
| 128
 +
| 90
 +
|-
 +
| ''Medicago truncatula''
 +
| 149
 +
| 99
 +
| 40
 +
| 45
 +
| 40
 +
|-
 +
| ''Glycene max''
 +
| 61
 +
| 39
 +
| 30
 +
| 30*
 +
| 24
 +
|-
 +
| Total
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| 6364
 +
| 2023
 +
| 2741
 +
| 2866
 +
| 1742
 +
|}
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'#Genotypes equals # genes because no information on alleles was available for these species.
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 +
 
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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

See: Rice_IMP,_Gramene_Genes

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

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