|
| Status |
Public on Sep 15, 2022 |
| Title |
RNA-Seq_DD-ZT0-rep1 |
| Sample type |
SRA |
| |
|
| Source name |
mature leaf
|
| Organism |
Oryza sativa Indica Group |
| Characteristics |
cultivar: Minghui 63
treatment: constant dark (DD)
time-point: ZT0
tissue: mature leaf
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using RNeasy Plant Mini Kit (Qiagen). 0.5-1.5 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using TruSeq Stranded Total RNA with Ribo-Zero Plant for RNA-seq according to the manufacturer’s recommendations.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Raw reads were filtered for adapter and low quality reads by Trimmomatic
Clean reads mapped to the reference genome with HISAT2
The FPKM was calculated by Cufflinks v2.1.1
Assembly: Download the genome from http://rice.hzau.edu.cn/
Supplementary files format and content: The expression of each gene was quantified using HTSeq
|
| |
|
| Submission date |
Sep 10, 2022 |
| Last update date |
Sep 17, 2022 |
| Contact name |
guoting chen |
| E-mail(s) |
chenguoting@webmail.hzau.edu.cn
|
| Phone |
+86 13212791520
|
| Organization name |
National Key Laboratory of Crop Genetic Improvement
|
| Street address |
1 Shizishan Street, Hongshan District
|
| City |
Wuhan |
| ZIP/Postal code |
430000 |
| Country |
China |
| |
|
| Platform ID |
GPL26667 |
| Series (2) |
| GSE213093 |
Systematic analysis of circadian gene expression mediated by epigenetic modification and 3D genome organization in Rice [RNA-Seq] |
| GSE213227 |
Systematic analysis of circadian gene expression mediated by epigenetic modification and 3D genome organization in Rice |
|
| Relations |
| BioSample |
SAMN30790668 |
| SRA |
SRX17525470 |
