|
| Status |
Public on May 04, 2021 |
| Title |
3-Col-NTC |
| Sample type |
SRA |
| |
|
| Source name |
seedlings
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
accession: Col-0
genotype: wild type
treatment: NTC
|
| Treatment protocol |
For heat treatment 4 d-old seedlings were exposed to 37°C for 1 h, 23°C for 90 min and 44°C for 45 min. After the indicated recovery times (4h, 28h, 52h) samples were harvested by flash-freezing.
|
| Growth protocol |
Plants were grown under long-day conditions (16 h light/ 8 h dark).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with RNeasy Plant Mini kit (Qiagen) and on-column DNase digest of RNA performed with RNase-Free DNase (Qiagen).
RNA quality control, library preparation, and sequencing were performed by BGI Genomics with the DNBseq platform generating 2x150 bp paired-end sequencing reads.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Description |
non treated control
|
| Data processing |
Paired-end reads for each sample were mapped against the Arabidopsis thaliana reference genome (TAIR10) using STAR version 2.5.1a.
Quantification at gene level was also done using STAR, --quantMode GeneCounts option.
Genome_build: TAIR10
Supplementary_files_format_and_content: Raw gene read counts for each sample.
|
| |
|
| Submission date |
Dec 01, 2020 |
| Last update date |
May 04, 2021 |
| Contact name |
Isabel Bäurle |
| E-mail(s) |
[email protected]
|
| Phone |
+49 331 9772647
|
| Organization name |
Universität Potsdam
|
| Department |
Institut für Biochemie und Biologie
|
| Street address |
Karl-Liebknecht-Str. 24-25
|
| City |
Potsdam |
| ZIP/Postal code |
14476 |
| Country |
Germany |
| |
|
| Platform ID |
GPL24025 |
| Series (1) |
| GSE162434 |
Heteromeric HSFA2/HSFA3 complexes drive transcriptional memory after heat stress in Arabidopsis |
|
| Relations |
| BioSample |
SAMN16969876 |
| SRA |
SRX9614392 |
