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Sample GSM713253 Query DataSets for GSM713253
Status Public on Dec 31, 2011
Title DFPM_2
Sample type RNA
 
Source name whole seedling treated with [5-(3,4-Dichlorophenyl)Furan-2-yl]-Piperidin-1-ylMethanethione (DFPM)
Organism Arabidopsis thaliana
Characteristics ecotype: Col0
age: 12 day old plate grown seedling
Extracted molecule total RNA
Extraction protocol Trizol (Invitrogen, Carlsbad, CA, USA) and further purified using RNeasy Plant RNA purification kit (QIAgen, Valencia, CA, USA)
Label Biotin
Label protocol UCSD GeneChip Microarray Core; Affymetrix GeneChip IVT Labeling Kit, according to manufactuer's protocol (GeneChip Expression Analysis Technical Manual)
 
Hybridization protocol UCSD GeneChip Microarray Core; Affymetrix Eukaryotic Target Hybridization protocol (GeneChip Expression Analysis Technical Manual)
Scan protocol UCSD GeneChip Microarray Core; Affymetrix GeneChip Scanner 3000 with GCOS software according to manufactuer's protocol (GeneChip Expression Analysis Technical Manual)
Description Plate grown 12-day-old seedlings were transferred into 6 well plates with 30 μM DFPM for 6 hours. DFPM was added 30 min prior to ABA treatment.
Data processing Probe set summarization and normalization was performed by robust multi-array averaging (gcrma, including background subtraction, summarization by median polish and quantile normalization) using the R/Bioconductor package affy.
 
Submission date Apr 21, 2011
Last update date Aug 15, 2018
Contact name Julian Schroeder
URL http://www-biology.ucsd.edu/labs/schroeder/index.html
Organization name UCSD
Department Division of Biological Sciences
Lab Schroeder Laboratory
Street address 9500 Gilman Drive #0116
City La Jolla
State/province CA
ZIP/Postal code 92093-0116
Country USA
 
Platform ID GPL198
Series (1)
GSE28800 Gene expression data from ABA, [5-(3,4-Dichlorophenyl)Furan-2-yl]-Piperidin-1-ylMethanethione (DFPM), and ABA+DFPM treated Arabidopsis thaliana seedlings.
Relations
Reanalyzed by GSE118579

Data table header descriptions
ID_REF
VALUE GC-RMA-calculated signal intensity

Data table
ID_REF VALUE
244901_at 4.14733257493693
244902_at 3.47393513915094
244903_at 5.87446383971144
244904_at 3.09849545741351
244905_at 2.13690779985573
244906_at 5.97553030688367
244907_at 2.13690779985573
244908_at 2.13690779985573
244909_at 2.13690779985573
244910_s_at 2.13690779985573
244911_at 2.13690779985573
244912_at 8.06614658151008
244913_at 2.13690779985573
244914_at 2.20507911734348
244915_s_at 2.13690779985573
244916_at 2.13690779985573
244917_at 2.13690779985573
244918_at 2.13690779985573
244919_at 2.45960271046004
244920_s_at 6.86122915498037

Total number of rows: 22810

Table truncated, full table size 602 Kbytes.




Supplementary file Size Download File type/resource
GSM713253.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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