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Sample GSM1547615 Query DataSets for GSM1547615
Status Public on Dec 07, 2016
Title 7-day-old seedlings of HSFA6b-RD at control condition, biological rep1
Sample type RNA
 
Source name 7-day-old seedling of HSFA6b-RD at control condition
Organism Arabidopsis thaliana
Characteristics genotype: HSFA6b dominant-negative
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 HSFA6b-RD at control condition
CK-RD-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 539.5 P 0.000044
AFFX-BioB-M_at 710.8 P 0.000052
AFFX-BioB-3_at 625 P 0.000044
AFFX-BioC-5_at 1941.1 P 0.000044
AFFX-BioC-3_at 1517 P 0.00007
AFFX-BioDn-5_at 3537.9 P 0.000044
AFFX-BioDn-3_at 6229.2 P 0.000044
AFFX-CreX-5_at 13656.7 P 0.000044
AFFX-CreX-3_at 24601.8 P 0.000044
AFFX-DapX-5_at 66.8 P 0.001796
AFFX-DapX-M_at 155.6 P 0.000857
AFFX-DapX-3_at 434.3 P 0.000095
AFFX-LysX-5_at 1.8 A 0.843268
AFFX-LysX-M_at 18.4 A 0.327079
AFFX-LysX-3_at 77.9 P 0.001102
AFFX-PheX-5_at 12.2 A 0.645547
AFFX-PheX-M_at 27.6 A 0.18511
AFFX-PheX-3_at 69.6 P 0.039661
AFFX-ThrX-5_at 24.7 A 0.16584
AFFX-ThrX-M_at 49.1 A 0.083592

Total number of rows: 22810

Table truncated, full table size 588 Kbytes.




Supplementary file Size Download File type/resource
GSM1547615_BH0460-3.CEL.gz 1.9 Mb (ftp)(http) CEL
GSM1547615_BH0460-3.txt.gz 569.2 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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