|
| Status |
Public on Jul 08, 2012 |
| Title |
bzr1-1D RNA-Seq replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
bzr1-1D RNA-Seq
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Col-0
genotype/variation: bzr1-1D mutant
tissue: etiolated 5d-old seedlings
|
| Growth protocol |
Seedlings were grown on MS medium containing BRZ (brassinosteroid biosynthesis inhibitor) in the dark for 5 days before harvesting.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from 5-day-old seedlings using the Spectrum Plant Total RNA kit (Sigma, USA). Libraries were constructed using TruSeqTM RNA Sample Preparation Kit (Illumina) according to the manufacturer’s procedure.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
RNA-Seq of bzr1-1D replicate 1
|
| Data processing |
Total reads were mapped to the Arabidopsis thaliana genome (TAIR9, www.arabidopsis.org) using TopHat software. Read counts corresponding genes were generated using HTSeq with union mode.
Genome Build:
B_L1.count.txt: Arabidopsis TAIR9
|
| |
|
| Submission date |
Apr 11, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Eunkyoo Oh |
| Organization name |
Carnegie Institution
|
| Department |
Plant Biology
|
| Street address |
260 Panama Street
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL13222 |
| Series (2) |
| GSE37159 |
Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses [RNA-seq] |
| GSE37160 |
Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses |
|
| Relations |
| SRA |
SRX140103 |
| BioSample |
SAMN00854769 |
