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Sample GSM78340 Query DataSets for GSM78340
Status Public on Nov 14, 2005
Title Ws wild-type, 1µM ABA treatment, replicate 3
Sample type RNA
 
Source name Ws, 1µM ABA treatment
Organism Arabidopsis thaliana
Characteristics Wild type ecotype Wassilewskija (Ws), young seedlings
Extracted molecule total RNA
Extraction protocol Approximately 100 mg of 7-day old seedlings were frozen and ground in liquid nitrogen. Total RNA was extracted using an TRIzol kit (Invitrogen) and purified by RNeasy kit (Qiagen).
Label biotin
Label protocol Approximately 10 µg of total RNA was processed to produce biotinylated cRNA targets.
 
Hybridization protocol standard Affymetrix procedures
Scan protocol standard Affymetrix procedures
Description Wild type (Ws), seedlings treated by 1µM ABA (dissolved in DMSO) for 4 hours in liquid medium (MS) after 7 days of growth liquid medium (MS + 3% sucrose) at 150rpm shaking.
Data processing Affymetrix GCOS 1.1.1 software
 
Submission date Oct 14, 2005
Last update date Oct 28, 2005
Contact name Zhi-Liang Zheng
Organization name Lehman College of City University of New York
Department Biological Sciences
Street address 250 Bedford Park Blvd W
City Bronx
State/province NY
ZIP/Postal code 10468
Country USA
 
Platform ID GPL198
Series (1)
GSE3454 Transcriptome analysis of ROP10 GTPase-mediated abscisic acid (ABA) signaling in Arabidopsis

Data table header descriptions
ID_REF
VALUE GCOS 1.1.1 software-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 175.2 P 0.002867
AFFX-BioB-M_at 153.5 P 0.000044
AFFX-BioB-3_at 125.3 P 0.000297
AFFX-BioC-5_at 370.4 P 0.000095
AFFX-BioC-3_at 203.2 P 0.000052
AFFX-BioDn-5_at 531.8 P 0.000044
AFFX-BioDn-3_at 1979.6 P 0.000044
AFFX-CreX-5_at 4755.8 P 0.000044
AFFX-CreX-3_at 7281.7 P 0.000044
AFFX-DapX-5_at 160.3 P 0.000169
AFFX-DapX-M_at 393.1 P 0.00039
AFFX-DapX-3_at 449.3 P 0.000052
AFFX-LysX-5_at 33.6 P 0.039661
AFFX-LysX-M_at 76.1 A 0.227636
AFFX-LysX-3_at 108.4 P 0.000127
AFFX-PheX-5_at 51.6 A 0.108979
AFFX-PheX-M_at 57.1 A 0.095667
AFFX-PheX-3_at 73.3 P 0.004017
AFFX-ThrX-5_at 49.1 P 0.018281
AFFX-ThrX-M_at 69.8 P 0.001248

Total number of rows: 22810

Table truncated, full table size 589 Kbytes.




Supplementary data files not provided

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