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Sample GSM1872389 Query DataSets for GSM1872389
Status Public on Oct 24, 2016
Title Col s-1R
Sample type SRA
 
Source name Leaves
Organism Arabidopsis thaliana
Characteristics tissue: leaves
ecotype: Col-0
age: Twenty-five-day-old plants
treatment: Treated with 150mM NaCl for 15days
Treatment protocol All treatments were perfomed in parallel. Salt stress was imposed on 12-d-old plants by applying 150mM NaCl for 13 days. Twenty five-d-old plants grown in the presense or absense of salt stress were subjected to heat stress (44oC) for 1h.
Growth protocol Plants were grown on soil mixture under controlled conditions: 21oC, 12-h light cycle, 100 mmol m-2s-1, and relative humidity of 70%
Extracted molecule total RNA
Extraction protocol Total RNA was extracted by using Trizol reagent and purified using Qiagen RNeasy mini kit
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Used Tophat and Bowtie for read alignment onto Arabidopsis reference genome and Cufflinks for obtaining the FPKMs and assessment of significance of fold change
Genome_build: TAIR9
Supplementary_files_format_and_content: Tab-delimited file (opens in Excel); FPKMs for Control, Salt, Heat, and Salt-Heat combination stress
 
Submission date Sep 08, 2015
Last update date May 15, 2019
Contact name Rajeev K. Azad
Organization name University of North Texas
Street address 1155 Union Circle #305220
City Denton
State/province Texas
ZIP/Postal code 76210
Country USA
 
Platform ID GPL13222
Series (1)
GSE72806 ABA is required for plant acclimation to a combination of salt and heat stress
Relations
BioSample SAMN04040983
SRA SRX1206674

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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