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Sample GSM327407 Query DataSets for GSM327407
Status Public on Jan 15, 2009
Title Populus balsamifera_1006_root_midday_1
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
E-mail(s) malcolm.campbell@utoronto.ca
Phone 416-946-0817
Fax 416-978-5878
URL http://www.csb.utoronto.ca/faculty/campbell-malcolm
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
ID_REF
VALUE normalized (scaled) signal count data
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 482.119 P 0.000296708
AFFX-BioB-M_at 539.933 P 5.16732e-05
AFFX-BioB-3_at 394.753 P 4.42873e-05
AFFX-BioC-5_at 1252.69 P 6.02111e-05
AFFX-BioC-3_at 1278.85 P 4.42873e-05
AFFX-BioDn-5_at 2427.83 P 4.42873e-05
AFFX-BioDn-3_at 5624.58 P 4.42873e-05
AFFX-CreX-5_at 18157 P 4.42873e-05
AFFX-CreX-3_at 21717 P 4.42873e-05
AFFX-DapX-5_at 16491.2 P 0.036569
AFFX-DapX-M_at 23527.9 P 0.000972149
AFFX-DapX-3_at 30380.6 P 0.00499819
AFFX-LysX-5_at 2476.03 P 0.000662269
AFFX-LysX-M_at 4145.77 P 9.4506e-05
AFFX-LysX-3_at 6936.74 P 0.00844047
AFFX-PheX-5_at 4200.85 P 9.4506e-05
AFFX-PheX-M_at 7482.02 P 0.000581214
AFFX-PheX-3_at 5667.24 P 0.0336773
AFFX-ThrX-5_at 4892.49 P 0.000753643
AFFX-ThrX-M_at 10125.5 P 0.000753643

Total number of rows: 61413

Table truncated, full table size 2507 Kbytes.




Supplementary file Size Download File type/resource
GSM327407.CEL.gz 4.8 Mb (ftp)(http) CEL
GSM327407.CHP.gz 334.8 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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