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Sample GSM372042 Query DataSets for GSM372042
Status Public on Jan 04, 2010
Title Clone1979_LPI5_N-_8w_rep1
Sample type RNA
Source name LPI5, low nitrogen, 8-week
Organism Populus fremontii x Populus angustifolia
Characteristics clone: 1979
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 8 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 8-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 Jan 04, 2010
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)
GSE14515 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 1979
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 890.7 P 0.00006
AFFX-BioB-5_at 792.5 P 0.000581
AFFX-BioB-M_at 1336.1 P 0.000044
AFFX-BioC-3_at 2565 P 0.000044
AFFX-BioC-5_at 2850.7 P 0.000044
AFFX-BioDn-3_at 11058.5 P 0.000044
AFFX-BioDn-5_at 5995.8 P 0.000044
AFFX-CreX-3_at 32679.8 P 0.000044
AFFX-CreX-5_at 29593 P 0.000052
AFFX-DapX-3_at 59.4 P 0.023929
AFFX-DapX-5_at 34 A 0.072682
AFFX-DapX-M_at 5.5 A 0.760937
AFFX-LysX-3_at 21.6 A 0.41138
AFFX-LysX-5_at 43.1 A 0.175328
AFFX-LysX-M_at 1.5 A 0.984825
AFFX-PheX-3_at 5.3 A 0.921998
AFFX-PheX-5_at 4 A 0.995983
AFFX-PheX-M_at 2.6 A 0.986189
AFFX-Ptp-actin-3_s_at 12940.6 P 0.000244
AFFX-Ptp-actin-5_a_at 6614.4 P 0.008057

Total number of rows: 61413

Table truncated, full table size 2297 Kbytes.

Supplementary file Size Download File type/resource
GSM372042.CEL.gz 4.8 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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