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Sample GSM8547807 Query DataSets for GSM8547807
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

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

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