|
| Status |
Public on May 20, 2024 |
| Title |
S45_WGBS |
| Sample type |
SRA |
| |
|
| Source name |
leaf
|
| Organism |
Vaccinium corymbosum |
| Characteristics |
tissue: leaf
genotype: wild type
treatment: no
time: after flowering
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Blueberry leaves were collected for DNA extraction using a CTAB-based method. 400 ng DNA was used for bisulfite conversion with the EZ DNA methylation-lighting kit
|
| |
|
| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
RANDOM |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Adaptors were first trimmed from the raw sequencing reads using fastp v0.20.1. The trimmed reads were aligned to reference genome(2019 gigascience) using BSseeker2 under default. Reads with more than three consecutive methylated CHH were removed as described previously. CGmaptools is used for downstream analysis and visualization
Assembly: V_corymbosum_v1.0
Supplementary files format and content: generated by BSseeker2 and Cgmaptools.
|
| |
|
| Submission date |
Mar 23, 2023 |
| Last update date |
May 20, 2024 |
| Contact name |
Zejia Wang |
| E-mail(s) |
wangzj@stu.pku.edu.cn
|
| Organization name |
Peking University
|
| Street address |
Yanyuan Street
|
| City |
Beijing |
| ZIP/Postal code |
100871 |
| Country |
China |
| |
|
| Platform ID |
GPL33280 |
| Series (1) |
| GSE228041 |
RNAseq and WGBS of Vaccinium corymbosum |
|
| Relations |
| BioSample |
SAMN33824837 |
| SRA |
SRX19724092 |
