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Sample GSM372096 Query DataSets for GSM372096
Status Public on Feb 19, 2009
Title Clone3200_LPI5_N-_4w_rep2
Sample type RNA
Source name LPI5, low nitrogen, 4-week
Organism Populus fremontii x Populus angustifolia
Characteristics clone: 3200
Treatment protocol Plants of ~1 m height were distributed into two large ebb and flow hydroponic tubs, one receiving 5 mM nitrogen (N+) and the other with 0.125 mM nitrogen (N-). Plants were maintained as described in Growth Protocol for 4 weeks prior to sampling.
Growth protocol Rooted cuttings, 10-15 cm in height, were transferred into aerated nutrient solution containing 5 mM nitrogen. Distilled water was added daily as needed to maintain a constant nutrient volume. Nutrient solution was replaced weekly, and a pH of 5.8±0.3 was maintained by daily additions of 2N KOH or 2N HCl.
Extracted molecule total RNA
Extraction protocol CTAB protocol
Label biotin
Label protocol Affymetrix
Hybridization protocol Affymetrix
Scan protocol Affymetrix
Description Gene expression data from a 4-week N experiment.
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.
Submission date Feb 18, 2009
Last update date Feb 18, 2009
Contact name Chung-Jui Tsai
Organization name University of Georgia
Department School of Forestry and Natural Resources
Street address 120 Green Street
City Athens
State/province GA
ZIP/Postal code 30606
Country USA
Platform ID GPL4359
Series (3)
GSE14893 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 3200
GSE14894 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation
GSE16786 Populus stress response: nitrogen limitation, leaf wounding, and methyl jasmonate feeding of cell culture

Data table header descriptions
VALUE MAS5.0 signal intensity

Data table
AFFX-BioB-3_at 2359 P 0.000044
AFFX-BioB-5_at 1939.7 P 0.000095
AFFX-BioB-M_at 3307.2 P 0.000044
AFFX-BioC-3_at 1634.9 P 0.000052
AFFX-BioC-5_at 2086.1 P 0.00007
AFFX-BioDn-3_at 30291 P 0.000044
AFFX-BioDn-5_at 14603.9 P 0.000044
AFFX-CreX-3_at 79808.5 P 0.000044
AFFX-CreX-5_at 66731.2 P 0.000052
AFFX-DapX-3_at 1851.5 P 0.000095
AFFX-DapX-5_at 422 P 0.026111
AFFX-DapX-M_at 1367.2 P 0.000581
AFFX-LysX-3_at 292 P 0.004998
AFFX-LysX-5_at 118.6 A 0.067678
AFFX-LysX-M_at 203.8 A 0.165861
AFFX-PheX-3_at 285.7 A 0.078002
AFFX-PheX-5_at 136.9 A 0.095667
AFFX-PheX-M_at 246.2 P 0.002867
AFFX-Ptp-actin-3_s_at 22095.8 P 0.000244
AFFX-Ptp-actin-5_a_at 15308.6 P 0.000732

Total number of rows: 61413

Table truncated, full table size 2307 Kbytes.

Supplementary file Size Download File type/resource
GSM372096.CEL.gz 4.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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