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Sample GSM254095 Query DataSets for GSM254095
Status Public on Mar 18, 2009
Title Rice suppressed OsSKIPa, biological repeat 3
Sample type RNA
Source name Rice suppressed OsSKIPa
Organism Oryza sativa Japonica Group
Characteristics OsSKIPa suppressed plants
Growth protocol Sterilized seeds of transgenic plants and wild type were germinated in MS medium. Positive transgenic plants were selected by adding 50 mM hygromycin for S58S, or 50 mM G418 for S59R into the medium. Ten-day-old uniform seedlings were transferred to hydroponics culture medium and 1-month-old whole plants were collected for microarray analysis. All transgenic plants were prechecked by real time RT-PCR for the expression level of OsSKIPa to confirm overexpression or suppression of the gene.
Extracted molecule total RNA
Extraction protocol TRIzol(Invitrogen, Carlsbad, CA, USA) extraction of total RNA was performed according to the manufacturer's instructions.
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Hybridization protocol standard Affymetrix procedures
Scan protocol GeneChips were scanned using the Affymetrix® GeneChip® Scanner 3000.
Description shoots of S59R, biological rep3 (S59R-3)
Data processing Affymetrix ® GeneChip® Operating SoftwareVersion1.0
Submission date Jan 02, 2008
Last update date Mar 17, 2009
Contact name Kabin Xie
Phone +86-27-87281716
Fax +86-27-87297092
Organization name Huazhong Agriculture University
Department National Key Laboratory of Crop Genetic Improvement
Lab National Center of Plant Gene Research (Wuhan)
Street address Shizi Shan Street
City Wuhan
State/province Hubei
ZIP/Postal code 430070
Country China
Platform ID GPL2025
Series (1)
GSE10054 Expression information of splicing factor OsSKIPa knock-down and overexpressed rice

Data table header descriptions
VALUE MAS5 signal

Data table
AFFX-BioB-3_at 392.3 P 0.000044
AFFX-BioB-5_at 360.7 P 0.000225
AFFX-BioB-M_at 352.1 P 0.000052
AFFX-BioC-3_at 934.4 P 0.000044
AFFX-BioC-5_at 874.9 P 0.000044
AFFX-BioDn-3_at 4481.6 P 0.000044
AFFX-BioDn-5_at 1766 P 0.000044
AFFX-CreX-3_at 17968.8 P 0.000044
AFFX-CreX-5_at 13210.2 P 0.000052
AFFX-DapX-3_at 3021.3 P 0.000044
AFFX-DapX-5_at 516.4 P 0.00006
AFFX-DapX-M_at 1323.4 P 0.00007
AFFX-LysX-3_at 470.3 P 0.000044
AFFX-LysX-5_at 124.1 P 0.000095
AFFX-LysX-M_at 195.8 P 0.004998
AFFX-Mgr-actin-3_at 4.6 A 0.753906
AFFX-Mgr-actin-5_at 36.9 A 0.366211
AFFX-Mgr-actin-M_at 15.9 A 0.567627
AFFX-Mgr-ef1a-3_at 6.1 A 0.72583
AFFX-Mgr-ef1a-3_x_at 6.2 A 0.953857

Total number of rows: 57381

Table truncated, full table size 1960 Kbytes.

Supplementary file Size Download File type/resource
GSM254095.CEL.gz 4.4 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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