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Sample GSM269825 Query DataSets for GSM269825
Status Public on Sep 01, 2008
Title T8 leaf-drought-rep2
Sample type RNA
 
Source name transgenic line (T8) leaf, drought, replicate 2
Organism Arabidopsis thaliana
Characteristics fully expanded leaves- 7d without water
8 week old plants
Treatment protocol Leaf samples (pooled from 10 plants/line) were collected on day 0 and day 7 of the RWC time course and frozen immediately in liquid N2.
Growth protocol Wild type (Col 0) and InsP 5-ptase transgenic Arabidopsis plants were grown in the NC State University Phytotron in a growth chamber, under short day conditions (8h light/16 dark) at 21C with a light intensity of ~ 150 ╬╝mol m-2 sec-1.
Extracted molecule total RNA
Extraction protocol RNA was isolated using the Plant RNeasy kit (Qiagen, Valencia, CA).
Label biotin
Label protocol Biotinylated target cRNA was synthesized using the Two cycle Target Labeling protocol (Affymetrix Inc, Santa Clara, CA).
 
Hybridization protocol Arabidopsis arrays (ATH1 from Affymetrix Inc) were hybridized using the Affymetrix fluidics station.
Scan protocol Data acquisition and analysis was carried out by Expression Analysis Inc. (Durham, NC) using the Affymetrix scanner and GCOS software.
Description T8 leaf-drought-rep2
Data processing An estimate of signal for each transcript was calculated based on the Microarray Suite 5.0 algorithm (Affymetrix) and raw fold-change for each transcript was calculated by taking the simple ratio of the geometric means of the signal values for each respective group.
 
Submission date Feb 29, 2008
Last update date Aug 28, 2018
Contact name Imara Perera
E-mail(s) imara_perera@ncsu.edu
Phone 919-515-3544
Fax 919-515-3436
Organization name North Carolina State University
Department Plant Biology
Street address Campus Box 7612
City Raleigh
State/province NC
ZIP/Postal code 27695
Country USA
 
Platform ID GPL198
Series (1)
GSE10670 Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stress
Relations
Reanalyzed by GSE118579
Reanalyzed by GSE119083

Data table header descriptions
ID_REF
VALUE MAS5 signal, present and absent call, and probability.
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 301.9 P 0.0016
AFFX-BioB-M_at 344.1 P 0.0006
AFFX-BioB-3_at 282.0 P 0.0001
AFFX-BioC-5_at 874.6 P 0.0001
AFFX-BioC-3_at 903.3 P 0.0001
AFFX-BioDn-5_at 2168.2 P 0.0000
AFFX-BioDn-3_at 3276.1 P 0.0001
AFFX-CreX-5_at 11700.6 P 0.0000
AFFX-CreX-3_at 14474.2 P 0.0000
AFFX-DapX-5_at 120.3 P 0.0005
AFFX-DapX-M_at 1210.9 P 0.0003
AFFX-DapX-3_at 3608.6 P 0.0000
AFFX-LysX-5_at 54.7 P 0.0310
AFFX-LysX-M_at 195.5 P 0.0062
AFFX-LysX-3_at 929.3 P 0.0000
AFFX-PheX-5_at 32.8 A 0.3684
AFFX-PheX-M_at 168.1 P 0.0036
AFFX-PheX-3_at 894.9 P 0.0001
AFFX-ThrX-5_at 43.4 A 0.1479
AFFX-ThrX-M_at 181.3 P 0.0001

Total number of rows: 22810

Table truncated, full table size 550 Kbytes.




Supplementary file Size Download File type/resource
GSM269825.CEL.gz 2.2 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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