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Series GSE11217 Query DataSets for GSE11217
Status Public on Nov 04, 2008
Title Altered gene expression changes in Arabidopsis leaf tissues and protoplasts in response to Plum pox virus infection
Organism Arabidopsis thaliana
Experiment type Expression profiling by array
Summary Virus infection induces activation and suppression of global gene expression in the host. Profiling gene expression changes in the host may provide insights into the molecular mechanisms that underlie host physiological and phenotypic responses to virus infection. In this study, the Arabidopsis Affymetrix ATH1 whole genome array was used to assess global gene expression changes in Arabidopsis thaliana plants infected with Plum pox virus (PPV). To identify early genes in response to PPV infection, an Arabidopsis synchronized single-cell transformation system was developed. Arabidopsis protoplasts were transfected with a PPV infectious clone, PPV-SK68 and global gene expression changes in the transfected protoplasts were profiled.
Keywords: Time course and cell type comparison
 
Overall design For PPV infection in Arabdiopsis leaves, eight independent hybridizations were performed using total RNA isolated from three independent biological replicates of the virus-infected or mock-inoculated control samples.

For PPV infection in Arabidopsis protoplasts, 24 gene chips in total were used to hybridize with RNA isolated from protoplasts transfected with PPV infectious clone and PPV deletion mutant.
 
Contributor(s) Wang A, Babu M
Citation(s) 18613973
Submission date Apr 20, 2008
Last update date Jun 12, 2017
Contact name Mohan babu
E-mail(s) [email protected]
Phone 5194571470
Fax 5194573997
Organization name AAFC
Department Virology
Lab Molecular Virology
Street address 1391 Sandford
City London
State/province Ontario
ZIP/Postal code N5V 4T3
Country Canada
 
Platforms (1)
GPL198 [ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array
Samples (24)
GSM283928 PPV infection-Aabdiopsis protoplasts-3hpt rep 1
GSM283929 PPV infection-Aabdiopsis protoplasts-3hpt rep 2
GSM283930 PPV infection-Aabdiopsis protoplasts-3hpt rep 3
Relations
BioProject PRJNA106823

Averages for the individual replicates of the eight hybridizations header descriptions
ID_REF
1 average of Sample replicates GMS283928-GSM283930
2 average of Sample replicates GMS283931-GSM283933
3 average of Sample replicates GMS283934-GSM283936
4 average of Sample replicates GMS283937-GSM283939
5 average of Sample replicates GMS283940-GSM283942
6 average of Sample replicates GMS283943-GSM283945
7 average of Sample replicates GMS283946-GSM283948
8 average of Sample replicates GMS283949-GSM283951

Data table
ID_REF 1 2 3 4 5 6 7 8
244901_at 23.1 18.53 25.07 23.33 22.87 23.03 28.07 15.43
244902_at 21.2 22.23 32.8 14.43 25.5 20.2 67.27 18.67
244903_at 9.83 4.47 22.07 24.43 20.57 23.6 52.13 28.2
244904_at 1.73 3.33 3.77 1.3 3.73 2 62.67 18.73
244905_at 3.5 8.87 6.67 2.4 3.2 5.13 3.7 9.27
244906_at 81.87 89.6 83.67 76.63 103.23 85.13 90.6 140.1
244907_at 4.07 2.87 5.4 5.67 1.43 3.9 3.57 2.23
244908_at 0.63 1.8 2.47 0.33 0.4 3.67 0.57 0.97
244909_at 5.57 2.4 2.4 5.63 2.93 5.27 2.03 3.07
244910_s_at 8.13 6.87 4.7 2 4.47 9.5 1.87 7
244911_at 0.97 2.23 3.4 3.5 1.17 3 1.9 3.47
244912_at 39.6 36.33 20.33 19.37 28.93 30.8 33.53 20.2
244913_at 1.9 0.97 0.93 1.87 1.33 2.47 2.47 1.2
244914_at 2.73 1.23 3.43 2.6 2.93 4.37 2.27 2.9
244915_s_at 5.23 1.1 2.03 1.03 1.7 1.1 1 0.93
244916_at 2.33 5.3 3.9 8 2.9 5.6 4.67 4.5
244917_at 1.53 1.3 0.93 2.27 0.8 1.13 0.53 0.57
244918_at 2.07 3.07 0.8 1.87 2.13 0.77 0.77 3.4
244919_at 12 15.67 3.1 11.77 8.17 9.17 10.77 4
244920_s_at 106 65.97 54.93 45.17 90.17 109.8 337.9 114.57

Total number of rows: 22808

Table truncated, full table size 1189 Kbytes.




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Supplementary data files not provided
Processed data included within Sample table
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