NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM7660794 Query DataSets for GSM7660794
Status Public on Mar 17, 2024
Title WGBS_DNMT3L-ADD_FGO_Rep2
Sample type SRA
 
Source name Fully grown oocyte
Organism Mus musculus
Characteristics cell type: Fully grown oocyte
genotype: Dnmt3a+/+Dnmt3LD124A/D124A
Extracted molecule genomic DNA
Extraction protocol FGOs were harvested from adult ovaries (10 to 12 weeks old) by needle puncture and cumulus cells were removed by capillary washing. Sperms were released from the cauda epididymides of adult male mice and collected by swim-up method. For the 3a/3L DM sperm, viable sperms were selected by mouth pipetting
Sample with unmethylated lambda phage DNA was subjected to bisulfite treatment and library construction by the post-bisulfite adaptor tagging (PBAT) method (Miura et al., 2012).
 
Library strategy Bisulfite-Seq
Library source genomic
Library selection RANDOM
Instrument model Illumina NovaSeq 6000
 
Description whole-genome bisulfite sequencing (PBAT)
WGBS_FGO_3A_mCG_10kb.bedGraph
Data processing The reads were mapped to mouse genome mm10 using Bismark and bismark_methylation_extractor (Krueger et al. 2011). Only CG methylation data with coverage between 5 to 500 was used.
Assembly: mm10
Supplementary files format and content: bedGraph format
 
Submission date Jul 25, 2023
Last update date Mar 17, 2024
Contact name Naoki Kubo
E-mail(s) naoki.kubo@bioreg.kyushu-u.ac.jp
Organization name Kyushu University
Street address 3-1-1 Maidashi, Higashi-ku
City Fukuoka
State/province Fukuoka
ZIP/Postal code 812-8582
Country Japan
 
Platform ID GPL24247
Series (2)
GSE238227 Combinational effect of the ADD domains of DNMT3A and DNMT3L on DNA methylation landscapes in mouse germ cells [WGBS]
GSE238228 Combinational effect of the ADD domains of DNMT3A and DNMT3L on DNA methylation landscapes in mouse germ cells
Relations
BioSample SAMN36707029
SRA SRX21157957

Supplementary file Size Download File type/resource
GSM7660794_WGBS_FGO_3A_mCG_10kb.bedGraph.gz 3.9 Mb (ftp)(http) BEDGRAPH
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap