|
| Status |
Public on May 10, 2018 |
| Title |
X3-3 |
| Sample type |
SRA |
| |
|
| Source name |
The uppermost fully expanded leaves
|
| Organism |
Oryza sativa Indica Group |
| Characteristics |
developmental stage: 45 days seedlings
sampling time: 12:00
genotype/variation: OsPRR37 overexpression in Guangluai4
|
| Growth protocol |
natural long-day conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from each leaf sample with aTRIzol reagent (Invitrogen, Carlsbad,CA, USA) according to the manufacturer's instructions. The total RNA was treated with RNase-free DNase I (New England Biolabs, Ipswich, MA, USA) to eliminate genomic DNA contamination.
The cDNA library was constructed according to the protocol that is provided with the NEBNext Ultra RNA Library Prep Kit for Illumina, NEB #E7530 (New England Biolabs, Inc.).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
RNA-Seq reads were aligned to the Nipponbare (IRGSP-1.0) genome assembly using TopHat2
The "FPKM" and "CPM" was calculated according to Cuffdiff in the Cufflinks software
Genome_build: Nipponbare (IRGSP-1.0)
Supplementary_files_format_and_content: ".xls" files include "FPKM" and "Normalized (CPM)" for each sample
|
| |
|
| Submission date |
May 08, 2018 |
| Last update date |
May 10, 2018 |
| Contact name |
Chuan Liu |
| E-mail(s) |
whuliuchuan@163.com
|
| Phone |
+86-18086076695
|
| Organization name |
Wuhan University
|
| Department |
College of Life Sciences
|
| Street address |
Luojiashan
|
| City |
Wuhan |
| State/province |
Hubei |
| ZIP/Postal code |
430072 |
| Country |
China |
| |
|
| Platform ID |
GPL21027 |
| Series (1) |
| GSE114188 |
OsPRR37 confers an expanded regulation of the diurnal rhythms of the transcriptome and photoperiodic flowering pathways in rice |
|
| Relations |
| BioSample |
SAMN09093046 |
| SRA |
SRX4055314 |
