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Sample GSM1547613 Query DataSets for GSM1547613
Status Public on Dec 07, 2016
Title 7-day-old seedlings of Col-0 at control condition, biological rep1
Sample type RNA
 
Source name 7-day-old seedling of Col-0 at control condition
Organism Arabidopsis thaliana
Characteristics cultivar: Col-0
genotype: wildtype
tissue: seedling
age: 7-day-old
treatment: none
Treatment protocol 7-day-old seedlings were treated with 150mM NaCl for 6hr or 37℃ heat shock for 1hr, with 22℃ treatment as a control, then collected for RNA extracted.
Growth protocol Seedlings were grown at 22℃ on 0.5X MS plates containing 1% sucrose for 7 days.
Extracted molecule total RNA
Extraction protocol Samples were collected for RNA extraction by use of the RNeasy RNA extraction kit (Qiagen) according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 701021 Rev. 5, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16.5 hr at 45C on the GeneChip Arabidopsis ATH1 Genome Array. GeneChips were washed and stained in the Affymetrix® GeneChip® Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G.
Description 7-day-old seedling of Col-0 at control condition
CK-WT-1
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. The trimmed mean target intensity of each array was arbitrarily set to 500.
 
Submission date Nov 17, 2014
Last update date Dec 07, 2016
Contact name Ya-Chen Huang
E-mail(s) d95621103@ntu.edu.tw
Organization name National Taiwan University
Department Institute of Plant Biology and Department of Life Science
Lab Tsung-Luo Jinn
Street address No. 1, Sec. 4, Roosevelt Road
City Taipei
ZIP/Postal code 10617
Country Taiwan
 
Platform ID GPL198
Series (1)
GSE63372 Expression data of HSFA6b-overexpression and HSFA6b dominant-negative mutant lines of Arabidopsis after NaCl or Heat shock treatment

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 128.2 P 0.000095
AFFX-BioB-M_at 213 P 0.00006
AFFX-BioB-3_at 159.9 P 0.00006
AFFX-BioC-5_at 476.5 P 0.000044
AFFX-BioC-3_at 435.7 P 0.000297
AFFX-BioDn-5_at 1053 P 0.000044
AFFX-BioDn-3_at 1816 P 0.000044
AFFX-CreX-5_at 5730.8 P 0.000044
AFFX-CreX-3_at 10231.2 P 0.000044
AFFX-DapX-5_at 65.4 P 0.000754
AFFX-DapX-M_at 174.5 P 0.000581
AFFX-DapX-3_at 423.2 P 0.000081
AFFX-LysX-5_at 15.5 A 0.175328
AFFX-LysX-M_at 37.5 A 0.089478
AFFX-LysX-3_at 73.4 P 0.000509
AFFX-PheX-5_at 15.6 A 0.227636
AFFX-PheX-M_at 20.4 A 0.131361
AFFX-PheX-3_at 54.7 P 0.004484
AFFX-ThrX-5_at 13.2 A 0.195266
AFFX-ThrX-M_at 52.8 P 0.00844

Total number of rows: 22810

Table truncated, full table size 588 Kbytes.




Supplementary file Size Download File type/resource
GSM1547613_BH0460-1.CEL.gz 2.0 Mb (ftp)(http) CEL
GSM1547613_BH0460-1.txt.gz 564.9 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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