|
| Status |
Public on Aug 01, 2024 |
| Title |
WT-R1 |
| Sample type |
SRA |
| |
|
| Source name |
WT
|
| Organism |
Oryza sativa Japonica Group |
| Characteristics |
tissue: leaves of 3-month-old plants
|
| Treatment protocol |
no treament
|
| Growth protocol |
RIce plants grown in paddy field in Nanjing, China.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extrated using TRIzol method.
1.Total RNA used DNaseI to digest DNA, and enriched mRNA using magnetic beads with Oligo(dT). 2.Adding reagent in Thermomixer to interrupt mRNA into short fragments. 3.The fragmented mRNA was used as template to synthesize the first strand of cDNA, and then synthesized the second strand. 4.Purified, repaired, added "A" and adapters in the DNA, then selected 200-300bp fragments and performed PCR amplification. 5.The libraries were checked with Agilent 2100 Bioanalyzer and ABI Real-Time PCR System, the qualified libraries were sequenced using sequencing platform.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
WT-R1 mRNA-seq
|
| Data processing |
Low-quality reads had been eliminated.
All reads were mapped onto the O.sativa genome (MSU version 7.0) by Tophat.
|
| |
|
| Submission date |
Apr 07, 2021 |
| Last update date |
Aug 01, 2024 |
| Contact name |
xiaohan zhang |
| E-mail(s) |
[email protected]
|
| Organization name |
Nanjing Agricultural University
|
| Street address |
Weigang
|
| City |
Nanjing |
| ZIP/Postal code |
210095 |
| Country |
China |
| |
|
| Platform ID |
GPL27860 |
| Series (1) |
| GSE171646 |
Nitrogen fertilizer reduces salicylic acid-mediated immunity by activating gibberellin signaling in rice |
|
| Relations |
| BioSample |
SAMN18649138 |
| SRA |
SRX10533645 |
