|
Status |
Public on Oct 04, 2024 |
Title |
WGBS of MRV sample 4 |
Sample type |
SRA |
|
|
Source name |
Virion
|
Organism |
Mandarin fish ranavirus |
Characteristics |
tissue: Virion treatment: inoculating Mandarin fish fry (MFF-1) cells with MRV
|
Extracted molecule |
genomic DNA |
Extraction protocol |
The total DNA from the purified virions was extracted using the FastPure Cell/Tissue DNA Isolation Mini Kit following the manufacturer's protocol (Vazyme, China). Libraries were prepared using kit following to the manufacturer's protocol.
|
|
|
Library strategy |
Bisulfite-Seq |
Library source |
genomic |
Library selection |
RANDOM |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
The raw data were trimmed and filtered by Trimmomatic v0.39 (“ILLUMINACLIP:TruSeq3-PE-2:2:30:10:8:true SLIDINGWINDOW:5:20 LEADING:5 TRAILING:5 MINLEN:36 Clean data were mapped to the MRV genome, deduplicated and methylation extracted (--ignore_r2 2) using Bismark v0.24.2, Bowtie2 v2.5.2 and SAMtools v1.17. Assembly: MG941005.3 Supplementary files format and content: The number of methylations and unmethylations counts for each cytosines in MRV genome based on the WGBS data.
|
|
|
Submission date |
Oct 01, 2024 |
Last update date |
Oct 04, 2024 |
Contact name |
Mincong Liang |
Organization name |
Sun Yat-sen University
|
Department |
School of Marine Sciences
|
Street address |
No. 2 Daxue Road
|
City |
Zhuhai |
State/province |
Guangdong |
ZIP/Postal code |
519082 |
Country |
China |
|
|
Platform ID |
GPL34339 |
Series (1) |
GSE262554 |
Whole-genome bisulfite sequencing of Mandarin fish ranavirus |
|
Relations |
BioSample |
SAMN44007186 |
SRA |
SRX26250836 |