GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM302923 Query DataSets for GSM302923
Status Public on Feb 02, 2009
Title seedling_rep2
Sample type RNA
Source name seedling
Organism Oryza sativa
Characteristics seedling
Growth protocol Rice (Oryza sativa, japonica cultivar Zhonghua 11), was cultivated at day/night temperatures (28/22 °C) in phytotron
Extracted molecule total RNA
Extraction protocol RNA was extracted using the TRIzol method (Invitrogen).
Label Biotin
Label protocol RNA was labeled for use with the Affymetrix GeneChip Rice Genome array according to the manufactures protocol. (Expression Analysis Technical Manual, 2004, Affymetrix).
Hybridization protocol Affymetrix® GeneChip® Operating Software Version 1.0 was used for washing, staining, and scanning as described in the supplier’s protocol.
Scan protocol Scanning procedures of the arrays were carried out using Affymetrix GeneChip Scanner 3000 as described in the Affymetrix technical manual.
Description 10-day-old seedling
Data processing The data was analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
Submission date Jul 02, 2008
Last update date Feb 01, 2009
Contact name Hong-Wei Xue
Organization name Institute of Plant Physiology and Ecology,Shanghai Institutes of Biological Sciences
Street address 300 Fenglin Road
City Shanghai
ZIP/Postal code 200032
Country China
Platform ID GPL2025
Series (1)
GSE11966 Expression data from rice embryo,endosperm,root,leaf and seedling

Data table header descriptions
VALUE MAS5 signal

Data table
AFFX-BioB-3_at 322.7143664
AFFX-BioB-5_at 276.9210779
AFFX-BioB-M_at 436.7084023
AFFX-BioC-3_at 888.1604919
AFFX-BioC-5_at 886.7977455
AFFX-BioDn-3_at 5190.887523
AFFX-BioDn-5_at 1809.30289
AFFX-CreX-3_at 16324.55626
AFFX-CreX-5_at 13375.26469
AFFX-DapX-3_at 5634.055077
AFFX-DapX-5_at 452.1118715
AFFX-DapX-M_at 2181.401297
AFFX-LysX-3_at 1031.36253
AFFX-LysX-5_at 295.1376148
AFFX-LysX-M_at 357.7087078
AFFX-Mgr-actin-3_at 67.00254814
AFFX-Mgr-actin-5_at 53.23830814
AFFX-Mgr-actin-M_at 3.282273019
AFFX-Mgr-ef1a-3_at 2.517534303
AFFX-Mgr-ef1a-3_x_at 2.659898708

Total number of rows: 57381

Table truncated, full table size 1729 Kbytes.

Supplementary file Size Download File type/resource
GSM302923.CEL.gz 4.5 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap