|
| Status |
Public on Mar 17, 2024 |
| Title |
WGBS_WT_FGO_Rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Fully grown oocyte
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Fully grown oocyte
genotype: Wild type
|
| 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)
Processed data file on Rep1 sample: WGBS_FGO_wt_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) |
[email protected]
|
| 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 |
SAMN36707031 |
| SRA |
SRX21157955 |
