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Sample GSM537037 Query DataSets for GSM537037
Status Public on May 19, 2011
Title Pt_winter_1
Sample type RNA
Source name Poplar stem harvested in winter
Organism Populus trichocarpa
Characteristics tissue: Poplar stem (20 cm sections of 10 cm above ground) harvested in winter (December)
age: one-year-old field grown poplar
Treatment protocol no treatment; harvested in summer and winter.
Growth protocol Poplar (Populus trichocarpa) were grown on field (nursery bed).
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Poplar Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Gene expression data from stem tissue of Poplar harvested in winter (December 2005)
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Submission date Apr 22, 2010
Last update date May 19, 2011
Contact name Jae-Heung Ko
Phone 82-31-201-3863
Organization name Kyung Hee University
Department Plant & Environmental Resources
Street address 1 Seocheon-dong, Giheung-gu
City Yongin
State/province Gyeonggi
ZIP/Postal code 446-701
Country South Korea
Platform ID GPL4359
Series (1)
GSE21480 Novel aspects of transcriptional regulation in the winter survival and maintenance mechanism of perennial woody plants, poplar.

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 323.785 P 0.00159257
AFFX-BioB-M_at 373.753 P 0.000856509
AFFX-BioB-3_at 299.868 P 4.42873e-05
AFFX-BioC-5_at 1193.8 P 7.00668e-05
AFFX-BioC-3_at 958.597 P 4.42873e-05
AFFX-BioDn-5_at 1781.88 P 4.42873e-05
AFFX-BioDn-3_at 4065.67 P 5.16732e-05
AFFX-CreX-5_at 10758.1 P 5.16732e-05
AFFX-CreX-3_at 11760.9 P 4.42873e-05
AFFX-DapX-5_at 16.2554 A 0.368438
AFFX-DapX-M_at 18.3273 A 0.425962
AFFX-DapX-3_at 5.52149 A 0.843268
AFFX-LysX-5_at 25.1659 A 0.262827
AFFX-LysX-M_at 38.4859 A 0.39692
AFFX-LysX-3_at 33.7437 A 0.083592
AFFX-PheX-5_at 4.49475 A 0.989683
AFFX-PheX-M_at 4.02277 A 0.783476
AFFX-PheX-3_at 15.7884 A 0.699394
AFFX-ThrX-5_at 7.01799 A 0.686277
AFFX-ThrX-M_at 5.0551 A 0.772364

Total number of rows: 61413

Table truncated, full table size 2518 Kbytes.

Supplementary file Size Download File type/resource
GSM537037.CEL.gz 5.4 Mb (ftp)(http) CEL
GSM537037.CHP.gz 333.9 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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