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Experiment: Microarray analysis of HopAO1 transgenic Arabidopsis plants
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-416
This experiment was performed to identify gene expression changes resulting from the expression of the Pseudomonas syringae pv. tomato (Pst) strain DC3000 type III effector tyrosine phosphatase HopAO1 in stable Arabidopsis transgenic lines. Wild-type (Col gl1) plants and transgenic plants expressing HopAO1 or a mutant derivative, HopAO1 C378S, lacking phosphatase catalytic activity were vacuum-infiltrated with either a mock inoculum of sterile water or a suspension of the Pst DC3000 hrpA mutant and changes in gene expression in infiltrated leaf tissues were investigated 7 hours after inoculation using Affymetrix ATH1 genechips.
About the ExperimenterName: | Dr. William Underwood |
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Head of Lab Name: | Dr. Sheng Yang He |
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Lab:
| DOE Plant Research Laboratory |
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Institute:
| Michigan State University |
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Address: | DOE Plant Research Laboratory Michigan State University East Lansing, MI
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Postcode:
| 48824 |
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Country:
| USA |
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| Telephone Number:
| 5173539182 |
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All of the data available in this website/database is free, and you
are free to do whatever you please with it. If you intend to publish
work based on any of this data, please acknowledge us, contact the
experimenter above, and either acknowledge them or use them as
co-authors in the work.
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| About this ExperimentExperiment Type:
| genetic_modification_design; pathogenicity_design |
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Number of Slides: | 18 |
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| Experimental Parameters:
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parameter | genetic_modification |
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parameter | infect |
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Quality Control Measures Taken:
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References:
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| Other Information:
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Slides in this Experiment
Hybridisation Set: Underwood: Microarray analysis of HopAO1 transgenic Arabidopsis plants_genome
Slide: Underwood_2-1_Col-gl1-mock-inocu_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-2_Col-gl1-mock-inocu_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-3_Col-gl1-mock-inocu_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-4_HopAO1-mock-inocu_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation |
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Additional Organism Information:
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allele knocked out | HopAO1 from Pst DC3000 |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-5_HopAO1-mock-inocu_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation |
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Additional Organism Information:
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allele knocked out | HopAO1 from Pst DC3000 |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-6_HopAO1-mock-inocu_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation |
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Additional Organism Information:
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allele knocked out | HopAO1 from Pst DC3000 |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-7_HopAO1-C378S-mock-inocu_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation. |
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Additional Organism Information:
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allele knocked out | HopAO1 C378S from Pst DC3000 |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-8_HopAO1-C378S-mock-inocu_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation. |
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Additional Organism Information:
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allele knocked out | HopAO1 C378S from Pst DC3000 |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-9_HopAO1-C378S-mock-inocu_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a mock inoculum of sterile water containing the surfactant Silwet L-77 at a concentration of .004%. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation. |
---|
Additional Organism Information:
| |
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allele knocked out | HopAO1 C378S from Pst DC3000 |
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Other Information:
| |
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Protocols for BioSource 1 |
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Slide: Underwood_2-10_Col-gl1-hrpA-inocu_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
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treatment | Plants were inoculated by vacuum-infiltration with a 1x10e8 cfu/ml suspension of the Pst DC3000 hrpA mutant in sterile water containing .004% Silwet L-77. Leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-11_Col-gl1-hrpA-inocu_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a 1x10e8 cfu/ml suspension of the Pst DC3000 hrpA mutant in sterile water containing .004% Silwet L-77. Leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-12_Col-gl1-hrpA-inocu_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a 1x10e8 cfu/ml suspension of the Pst DC3000 hrpA mutant in sterile water containing .004% Silwet L-77. Leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation. |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-13_HopAO1-hrpA-inocu_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a 1x10e8 cfu/ml suspension of the Pst DC3000 hrpA mutant in sterile water containing .004% Silwet L-77. Leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation. |
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Additional Organism Information:
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allele knocked out | HopAO1 from Pst DC3000 |
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Other Information:
| |
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|
Protocols for BioSource 1 |
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Slide: Underwood_2-14_HopAO1-hrpA-inocu_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a 1x10e8 cfu/ml suspension of the Pst DC3000 hrpA mutant in sterile water containing .004% Silwet L-77. Leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation. |
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Additional Organism Information:
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allele knocked out | HopAO1 from Pst DC3000 |
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Other Information:
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Protocols for BioSource 1 |
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Slide: Underwood_2-15_HopAO1-hrpA-inocu_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Plants were inoculated by vacuum-infiltration with a 1x10e8 cfu/ml suspension of the Pst DC3000 hrpA mutant in sterile water containing .004% Silwet L-77. Leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation. |
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Additional Organism Information:
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allele knocked out | HopAO1 from Pst DC3000 |
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Other Information:
| |
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|
Protocols for BioSource 1 |
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Slide: Underwood_2-16_HopAO1-C378S-hrpA-inocu_Rep1_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
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treatment | Total RNA was extracted from 1g of frozen leaf tissue using the Promega RNAgents kit according to the manufacturers protocol. Isolated RNA was further purified prior to labeling using the Qiagen RNeasy spin column kit according to the manufacturers protocol. |
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Additional Organism Information:
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allele knocked out | HopAO1 C378S from Pst DC3000 |
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Other Information:
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|
Protocols for BioSource 1 |
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Slide: Underwood_2-17_HopAO1-C378S-hrpA-inocu_Rep2_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Total RNA was extracted from 1g of frozen leaf tissue using the Promega RNAgents kit according to the manufacturers protocol. Isolated RNA was further purified prior to labeling using the Qiagen RNeasy spin column kit according to the manufacturers protocol. |
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Additional Organism Information:
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allele knocked out | HopAO1 C378S from Pst DC3000 |
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Other Information:
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|
Protocols for BioSource 1 |
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Slide: Underwood_2-18_HopAO1-C378S-hrpA-inocu_Rep3_ATH1 | | |
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Tissue:
| Leaves |
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in vivo Treatment:
| |
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treatment | Total RNA was extracted from 1g of frozen leaf tissue using the Promega RNAgents kit according to the manufacturers protocol. Isolated RNA was further purified prior to labeling using the Qiagen RNeasy spin column kit according to the manufacturers protocol. |
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Additional Organism Information:
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allele knocked out | HopAO1 C378S from Pst DC3000 |
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Other Information:
| |
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|
Protocols for BioSource 1 |
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Problems? Comments? Suggestions? Contact the Affymetrix Team