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Sample GSM261028 Query DataSets for GSM261028
Status Public on Apr 29, 2009
Title ABA-Late-rep2
Sample type RNA
Source name ABA-L2
Organism Hordeum vulgare
Characteristics ABA-Late
Treatment protocol Plants were grown at 20ºC for seven days and subject to 10 mol ABA treatment
Growth protocol Barley cv. Morex plants were grown in steam-sterilized soil in a growth chamber (Model GC-15, EGC Chagrin Falls, OH) with 12 h photopheriod (148 µmol m-2 s-1 average photosynthetic active radiation) at 23ºC, 12 h dark at 20ºC and 70% relative humidity.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TRIzol reagent (Invitrogen) from frozen crown samples taken from above soil tissue excluding most fully extended lamina. The protocol is available on the Arabidopsis Information Resource website at RNA was purified using Qiagen RNeasy spin columns with DNase treatment. Quality was assessed by running 25-250 ng on a RNA Lab-On-A-Chip (Caliper Technologies) using an Agilent Bioanalyzer 2100 (Agilent Technologies).
Label biotin
Label protocol The BioArray High-Yield RNA Transcript Labeling Kit (Enzo Diagnostics) was then used to synthesize biotin-labeled cRNA from template cDNA by in vitro transcription.
Hybridization protocol 10 µg labeled, fragmented cRNA was hybridized at 45°C with rotation for 16 hours in an Affymetrix GeneChip Hybridization Oven 320 on Affymetrix Barley1 Genechip arrays. The arrays were washed and stained using streptavidin phycoerythrin on an Affymetrix Fluidics Station 400.
Scan protocol The arrays were scanned on a Hewlett-Packard GeneArray scanner.
Description ABA-Late
Data processing GCOS MAS 5
Submission date Jan 30, 2008
Last update date Apr 28, 2009
Contact name Livia Tommasini
Phone 951 827 3808
Fax 951 827 4437
Organization name University of California, Riverside
Department Botany and Plant Science
Lab Tim Close
Street address 2150 Batchelor Hall
City Riverside
State/province CA
ZIP/Postal code 92521-0124
Country USA
Platform ID GPL1340
Series (1)
GSE10328 ABA experiment

Data table header descriptions
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)

Data table
AFFX-BioB-5_at 172.045 P 0.0284573
AFFX-BioB-M_at 119.225 P 0.0182806
AFFX-BioB-3_at 91.3858 M 0.0584438
AFFX-BioC-5_at 267.035 P 0.0020226
AFFX-BioC-3_at 200.75 P 0.00227496
AFFX-BioDn-5_at 232.397 P 0.00179591
AFFX-BioDn-3_at 2000.81 P 0.000296708
AFFX-CreX-5_at 2672.17 P 4.42873e-05
AFFX-CreX-3_at 4470.71 P 4.42873e-05
AFFX-DapX-5_at 18.766 A 0.354453
AFFX-DapX-M_at 32.179 A 0.156732
AFFX-DapX-3_at 6.26723 A 0.852061
AFFX-LysX-5_at 1.49897 A 0.794268
AFFX-LysX-M_at 7.95311 A 0.772364
AFFX-LysX-3_at 15.7224 A 0.287743
AFFX-PheX-5_at 8.88667 A 0.699394
AFFX-PheX-M_at 13.6875 A 0.699394
AFFX-PheX-3_at 13.4465 A 0.860518
AFFX-ThrX-5_at 7.73065 A 0.916408
AFFX-ThrX-M_at 38.332 A 0.275146

Total number of rows: 22840

Table truncated, full table size 788 Kbytes.

Supplementary file Size Download File type/resource
GSM261028.CEL.gz 3.6 Mb (ftp)(http) CEL
GSM261028.CHP.gz 6.3 Mb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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