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Sample GSM8128586 Query DataSets for GSM8128586
Status Public on Mar 09, 2024
Title Rice rep1 mutant
Sample type SRA
 
Source name O. sativa L. ssp. japonica
Organism Oryza sativa
Characteristics tissue: palea
genotype: Rice rep1 mutant
treatment: deletion mutant
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 SAMN40277815
SRA SRX23848592

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA

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