|
Status |
Public on Jun 21, 2022 |
Title |
osrdr2-3-pa Bs-seq |
Sample type |
SRA |
|
|
Source name |
young panicle
|
Organism |
Oryza sativa |
Characteristics |
cultivar: japonica tissue: panicle genotype: DES1 mutant
|
Growth protocol |
RIce plants grown in soil in Hannan province
|
Extracted molecule |
genomic DNA |
Extraction protocol |
genomic DNA was extrated using CTAB method. Genomic DNA was sonicated and then end-repaired with End repair Enzyme Mix. The blunt-ended DNA were treated with Klenow fragment and dATP to yield a proruding3-"A" and cytosine-methylated adaptors from Illumina were ligated according to manufacture's instructions.
|
|
|
Library strategy |
Bisulfite-Seq |
Library source |
genomic |
Library selection |
RANDOM |
Instrument model |
Illumina HiSeq 4000 |
|
|
Description |
des1-3 Bs-seq des1-3_methy.txt.gz
|
Data processing |
Low-quality sequences(q<20) and adapters were trimmed using trimmomatic. Reads were mapped to MSU7.0 using MSMAP 2.87 with parameters -g 1 methratio.py pathon script of BSMAP was used to extrac methylation ratios from BSMAP results with parameters -z and -r Genome_build: MSU 7.0 Supplementary_files_format_and_content: tdf, methy.txt.gz
|
|
|
Submission date |
Mar 23, 2018 |
Last update date |
Jun 21, 2022 |
Contact name |
Lili Wang |
E-mail(s) |
2014201023@njau.edu.cn
|
Organization name |
Nanjing Agricultural University
|
Street address |
Weigang No.1
|
City |
Nanjing |
ZIP/Postal code |
210095 |
Country |
China |
|
|
Platform ID |
GPL23013 |
Series (2) |
GSE112258 |
Reinforcement of DNA methylation in CHH context through RNA-directed DNA methylation ensures sexual reproduction in rice [BS-Seq] |
GSE112259 |
Reinforcement of DNA methylation in CHH context through RNA-directed DNA methylation ensures sexual reproduction in rice |
|
Relations |
BioSample |
SAMN08783749 |
SRA |
SRX3837329 |