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Sample GSM327408 Query DataSets for GSM327408
Status Public on Jan 15, 2009
Title Populus balsamifera_1006_root_midday_2
Sample type RNA
Source name Populus balsamifera, clone 1006, root, midday
Organism Populus balsamifera
Characteristics Distal 15cm of well-rinsed root mass
Alberta Pacific Forest Industries clone 1006
Clonally-propagated, 8-week-old Populus balsamifera saplings
Roots collected in the middle of the light period
Biomaterial provider Alberta Pacific Forest Industries Inc., Boyle, AB, Canada
Growth protocol Plant material was collected from clonally-propagated, 8-week-old Populus balsamifera saplings (1006, Alberta Pacific Forest Industries Inc., Boyle, AB, Canada) grown in a climate-controlled growth chamber. Saplings were grown in Sunshine Mix (Sun Gro Horticulture, Vancouver, BC, Canada) with a 16h photoperiod, a maximum daytime temperature of 22°C and a minimum nighttime temperature of 17°C. All tissues were collected at midday. All tissues were collected from saplings without water limitations. Root samples include the distal 15cm of well-rinsed roots mass. All collected plant materials were flash frozen in liquid nitrogen upon harvesting and stored at -80°C until RNA was extracted.
Extracted molecule total RNA
Extraction protocol Chang S, Puryear J, Cariney J. 1993. A simple and efficient method for isolating RNA from pine trees. Plant Molecular Biology Reporter. 11:113-116.
Label biotin
Label protocol Affymetrix protocol: Eukaryotic target preparation: One-cycle target labeling assay
Hybridization protocol Affymetrix protocol: Eukaryotic target preparation: Eukaryotic target hybridization
Scan protocol Affymetrix protocol: GeneChip® Scanner 3000 7G Affymetrix 00-0073
Description Affymetrix protol: Fluidics script: EukGE-WS2v5
Data processing MAS5.0, scaled to 500
Submission date Oct 06, 2008
Last update date Dec 16, 2008
Contact name Malcolm M. Campbell
Phone 416-946-0817
Fax 416-978-5878
Organization name University of Toronto
Department Cell & Systems Biology
Lab 3058ESC
Street address 25 Willcocks Street
City Toronto
State/province ON
ZIP/Postal code M5S 3B2
Country Canada
Platform ID GPL4359
Series (1)
GSE13990 Populus balsamifera developmental tissue series

Data table header descriptions
VALUE normalized (scaled) signal count data

Data table
AFFX-BioB-5_at 493.838 P 0.000753643
AFFX-BioB-M_at 525.101 P 5.16732e-05
AFFX-BioB-3_at 437.036 P 0.00010954
AFFX-BioC-5_at 1522.54 P 6.02111e-05
AFFX-BioC-3_at 1734.87 P 4.42873e-05
AFFX-BioDn-5_at 2345.31 P 4.42873e-05
AFFX-BioDn-3_at 6280.06 P 4.42873e-05
AFFX-CreX-5_at 17127.2 P 4.42873e-05
AFFX-CreX-3_at 22303.1 P 4.42873e-05
AFFX-DapX-5_at 11042.3 P 0.00762003
AFFX-DapX-M_at 17467.5 P 0.0219019
AFFX-DapX-3_at 26164.5 P 0.000389797
AFFX-LysX-5_at 1499.28 P 0.000509415
AFFX-LysX-M_at 2343.13 P 0.002867
AFFX-LysX-3_at 2860.06 P 0.00687065
AFFX-PheX-5_at 2521.83 P 0.00618711
AFFX-PheX-M_at 6031.6 P 7.00668e-05
AFFX-PheX-3_at 2750.66 P 0.0464816
AFFX-ThrX-5_at 3125.24 P 0.00499819
AFFX-ThrX-M_at 6577.67 P 0.000581214

Total number of rows: 61413

Table truncated, full table size 2501 Kbytes.

Supplementary file Size Download File type/resource
GSM327408.CEL.gz 4.8 Mb (ftp)(http) CEL
GSM327408.CHP.gz 335.3 Kb (ftp)(http) CHP
Processed data included within Sample table
Raw data provided as supplementary file
Processed data provided as supplementary file

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