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Sample GSM327400 Query DataSets for GSM327400
Status Public on Jan 15, 2009
Title Populus balsamifera_20071015_Etiolated_seedling_6d_1
Sample type RNA
Source name 6 day old Populus balsamifera seedlings germinated in continuous darkness for 6 days
Organism Populus balsamifera
Characteristics Whole seedling - 20 individuals
Seedlot number 20071015
6 days post germination
Continuous light
Biomaterial provider National Tree Seed Centre, Fredericton, NB, Canada
Growth protocol Seedlings were germinated in a continuously dark growth chamber on wetted filter paper in petri plates with a constant temperature of 21°C. They were grown in this way for 6 days. On the 6th day, whole seedlings were collected and were flash frozen in liquid nitrogen upon harvesting and stored at -80°C until RNA was extracted. Each sample comprises pooled material from 20 individuals.
Extracted molecule total RNA
Extraction protocol Trizol method (Invitrogen, Burlington, ON, Canada)
Label biotin
Label protocol Affymetrix protocol: Eukaryotic sample and array processing: One-cycle target labeling assay
Hybridization protocol Affymetrix protocol: Eukaryotic sample and array processing: Eukaryotic target hybridization
Scan protocol Affymetrix protocol: GeneChip® Scanner 3000 7G Affymetrix 00-0073
Description Affymetrix protocol: 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 752.7 P 5.16732e-05
AFFX-BioB-M_at 1009 P 4.42873e-05
AFFX-BioB-3_at 683.76 P 4.42873e-05
AFFX-BioC-5_at 2261.5 P 5.16732e-05
AFFX-BioC-3_at 2185.89 P 4.42873e-05
AFFX-BioDn-5_at 5442.2 P 4.42873e-05
AFFX-BioDn-3_at 9520.71 P 4.42873e-05
AFFX-CreX-5_at 27081.1 P 5.16732e-05
AFFX-CreX-3_at 29164 P 4.42873e-05
AFFX-DapX-5_at 24.36 A 0.250796
AFFX-DapX-M_at 31.3908 P 0.0464816
AFFX-DapX-3_at 30.3101 P 0.0182806
AFFX-LysX-5_at 13.9098 A 0.300606
AFFX-LysX-M_at 37.5122 A 0.239063
AFFX-LysX-3_at 18.2402 A 0.544587
AFFX-PheX-5_at 1.62149 A 0.834139
AFFX-PheX-M_at 3.53035 A 0.659339
AFFX-PheX-3_at 10.2802 A 0.804734
AFFX-ThrX-5_at 25.1858 A 0.139482
AFFX-ThrX-M_at 38.0532 P 0.0182806

Total number of rows: 61413

Table truncated, full table size 2490 Kbytes.

Supplementary file Size Download File type/resource
GSM327400.CEL.gz 4.9 Mb (ftp)(http) CEL
GSM327400.CHP.gz 336.8 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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