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Sample GSM195227 Query DataSets for GSM195227
Status Public on Jun 30, 2007
Title Anther
Sample type RNA
Source name mature anther
Organism Oryza sativa
Characteristics genotype: Japonica Nipponbare
age: stage 1┬ĘC2 days before floret flowering
Growth protocol Rice were grown in season beginning from May to October, in the experimental farm of the Institute of Genetics and Developmental biology, Beijing.
Extracted molecule total RNA
Extraction protocol remove lemma and palea from floret,the anther is extracted and removed the filament
total RNA was isolated and purified by Qiagen RNeasy kit
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45 degree on GeneChip Rice Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Gene expression data from rice stigma
Data processing The data were analyzed with GCOS software (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 May 29, 2007
Last update date Jul 29, 2009
Contact name Wenying Xu
Organization name Institute of Genetics and Developmental Biology of the Chinese Academy of Sciences
Street address Datun Road, Chaoyang District
City Beijing
ZIP/Postal code 100101
Country China
Platform ID GPL2025
Series (1)
GSE7951 Genome-wide gene expression profiling of rice stigma

Data table header descriptions
VALUE MAS5-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
AFFX-BioB-5_at 396.9 P 0.001102
AFFX-BioB-M_at 422 P 0.00011
AFFX-BioB-3_at 327 P 0.00011
AFFX-BioC-5_at 1199.5 P 0.00006
AFFX-BioC-3_at 1461.3 P 0.000044
AFFX-BioDn-5_at 2715.6 P 0.000044
AFFX-BioDn-3_at 7291.2 P 0.00006
AFFX-CreX-5_at 13516.1 P 0.000052
AFFX-CreX-3_at 15359.2 P 0.000044
AFFX-DapX-5_at 1533.9 P 0.000044
AFFX-DapX-M_at 2510 P 0.000127
AFFX-DapX-3_at 3542.8 P 0.000052
AFFX-LysX-5_at 152.8 P 0.000044
AFFX-LysX-M_at 303.3 P 0.012547
AFFX-LysX-3_at 683.2 P 0.00007
AFFX-PheX-5_at 357.9 P 0.00006
AFFX-PheX-M_at 365 P 0.000081
AFFX-PheX-3_at 404.6 P 0.00011
AFFX-ThrX-5_at 371.5 P 0.000195
AFFX-ThrX-M_at 574.8 P 0.000044

Total number of rows: 57381

Table truncated, full table size 1961 Kbytes.

Supplementary file Size Download File type/resource
GSM195227.CEL.gz 4.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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