|
| Status |
Public on Mar 09, 2024 |
| Title |
Rice Wild type |
| Sample type |
SRA |
| |
|
| Source name |
O. sativa L. ssp. japonica
|
| Organism |
Oryza sativa |
| Characteristics |
tissue: palea
genotype: Rice Wild type
treatment: wild type
|
| Growth protocol |
All rice plants were grown in the paddy field of Shanghai Jiao Tong University, located in Shanghai (31.03ºN, 121.45ºE).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using RNAeasy kit (Qiagen).
Libraries were prepared from 2-5μg of total RNA, and mRNA was enriched with Dynabeads mRNA Purification Kit (Thermo Fisher).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Ion Torrent Proton |
| |
|
| Data processing |
The raw sequencing data are evaluated by FAST-QC including quality distribution of nucleotides, position specific sequencing quality, GC content, the proportion of PCR duplication, kmer frequency etc.
Mapsplice was used for RNA-seq alignment.
Assembly: IRGSP-1.0
Supplementary files format and content: tab-delimited text file includes FPKM for each Sample
|
| |
|
| Submission date |
Mar 06, 2024 |
| Last update date |
Mar 09, 2024 |
| Contact name |
Xuelian Zhang |
| E-mail(s) |
xuelianziyan@sjtu.edu.cn
|
| Phone |
+8618221262642
|
| Organization name |
Shanghai Jiao Tong University
|
| Street address |
800 Dongchuan Road
|
| City |
Shanghai |
| ZIP/Postal code |
200240 |
| Country |
China |
| |
|
| Platform ID |
GPL27029 |
| Series (1) |
| GSE260950 |
OsMADS6-OsMADS32 and REP1 control palea cellular heterogeneity and morphogenesis in rice |
|
| Relations |
| BioSample |
SAMN40277818 |
| SRA |
SRX23848589 |
