|
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 |