NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM6008660 Query DataSets for GSM6008660
Status Public on Apr 09, 2022
Title WT-6-Heat-4
Sample type RNA
 
Source name whole seedling
Organism Arabidopsis thaliana
Characteristics tissue: whole seedling
genotype/variation: WT
treatment: heat
time point: 6hr
age: 10-day old
Treatment protocol Plant samples were divided into two groups and each group contained three trays. One group set were subjected to continuous 40°C heat stress, while control group was grown at 23°C using growth chamber
Growth protocol 10-day-old plants (45 plants from each genotype per tray) were grown on plastic trays ((21×30×5 cm in width, length and height, respectively) containing dry soil and saturated with water
Extracted molecule total RNA
Extraction protocol Aerial tissues of 10-day-old WT and kai2-2 mutant plants grown on soil under control and 6h and 24h heat stress conditions were detached and collected in four biological replicates for transcriptome analysis
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions,
 
Hybridization protocol 1.5 ug of Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized for 17 hours at 65C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.
Scan protocol ly after washing on the Agilent DNA Microarray Scanner G2505C using one color scan setting
Description Gene expression inWT-6-Heat-4
Data processing The scanned images were analyzed with Feature Extraction Software 9.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
 
Submission date Apr 04, 2022
Last update date Apr 10, 2022
Contact name MOSTAFA ABDELWAHED Abdelrahman
E-mail(s) meettoo2000@yahoo.com
Phone +201095725679
Organization name GALALA UNNIVERSITY
Street address Suze
City El Sokhna
State/province SUZE
ZIP/Postal code 43511
Country Egypt
 
Platform ID GPL12621
Series (1)
GSE200100 Karrikin Receptor KARRIKIN INSENSITIVE2 Positively Regulates Heat Stress Tolerance in Arabidopsis thaliana

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
A_84_P800302 2.685094868
A_84_P20838 2.931033731
A_84_P13493 2.651821507
A_84_P759826 2.907352688
A_84_P14691 3.175162547
A_84_P51360 3.363604909
A_84_P12037 3.306024169
A_84_P225689 3.148346904
A_84_P229159 3.407833858
A_84_P23129 3.301522428
A_84_P11290 3.617369852
A_84_P859330 3.216850298
A_84_P218478 2.941168856
A_84_P14283 3.024458684
A_84_P12356 3.680082168
A_84_P125381 2.727880414
A_84_P89749 3.442263647
A_84_P752993 3.061493748
A_84_P505397 3.796540335
A_84_P23645 3.240735391

Total number of rows: 9999

Table truncated, full table size 237 Kbytes.




Supplementary file Size Download File type/resource
GSM6008660_US45103077_252116915382_S01_GE1_107_Sep09_1_4.txt.gz 8.6 Mb (ftp)(http) TXT
Processed data included within Sample table

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